submission_accession	submission_lab	updated_date	sradb_updated	study_accession	study_alias	study_name	study_title	study_type	study_abstract	center_project_name	study_description	study_attribute	description	design_description	sample_accession	sample_alias	sample_name	sample_attribute	taxon_id	background_strain	platform	platform_parameters	instrument_model	library_name	library_strategy	library_source	library_selection	library_layout	library_construction_protocol	is_paired	read_spec	experiment_accession	experiment_alias	experiment_name	experiment_title	experiment_attribute	run_accession	run_alias	run_center	spots	bases	sra_fname	year_collected
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323180	E-MTAB-1720:NS B	E-MTAB-1720:NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp19 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283431	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-036	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-036	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310125	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-036.sanfastq.gz	The GenePool, University of Edinburgh	1879764	95867964	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310125.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323177	E-MTAB-1720:XS+NS D	E-MTAB-1720:XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp30 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283301	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-014	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-014	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310018	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-014.sanfastq.gz	The GenePool, University of Edinburgh	6330342	322847442	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310018.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323173	E-MTAB-1720:NS D	E-MTAB-1720:NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp21 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283317	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-013	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-013	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR309994	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-013.sanfastq.gz	The GenePool, University of Edinburgh	5750605	293280855	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR309994.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323177	E-MTAB-1720:XS+NS D	E-MTAB-1720:XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp30 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283279	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-014	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-014	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310133	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-014.sanfastq.gz	The GenePool, University of Edinburgh	7088156	361495956	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310133.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323177	E-MTAB-1720:XS+NS D	E-MTAB-1720:XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp30 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283386	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-014	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-014	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310141	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-014.sanfastq.gz	The GenePool, University of Edinburgh	6496391	331315941	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310141.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323175	E-MTAB-1720:Control D	E-MTAB-1720:Control D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp12 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283357	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-012	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-012	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310013	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-012.sanfastq.gz	The GenePool, University of Edinburgh	6065987	309365337	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310013.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323176	E-MTAB-1720:OS+XS+NS B	E-MTAB-1720:OS+XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp31 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283328	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-037	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-037	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310169	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-037.sanfastq.gz	The GenePool, University of Edinburgh	1925178	98184078	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310169.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323176	E-MTAB-1720:OS+XS+NS B	E-MTAB-1720:OS+XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp31 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283277	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-037	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-037	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310045	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-037.sanfastq.gz	The GenePool, University of Edinburgh	2970531	151497081	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310045.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323182	E-MTAB-1720:Control B	E-MTAB-1720:Control B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp10 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283286	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-040	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-040	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310089	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-040.sanfastq.gz	The GenePool, University of Edinburgh	4537193	231396843	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310089.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323180	E-MTAB-1720:NS B	E-MTAB-1720:NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp19 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283283	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-036	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-036	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310011	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-036.sanfastq.gz	The GenePool, University of Edinburgh	3062512	156188112	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310011.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323173	E-MTAB-1720:NS D	E-MTAB-1720:NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp21 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283434	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-013	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-013	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310132	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-013.sanfastq.gz	The GenePool, University of Edinburgh	1648180	84057180	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310132.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323173	E-MTAB-1720:NS D	E-MTAB-1720:NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp21 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283390	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-013	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-013	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310000	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-013.sanfastq.gz	The GenePool, University of Edinburgh	5685881	289979931	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310000.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323177	E-MTAB-1720:XS+NS D	E-MTAB-1720:XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp30 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283465	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-014	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-014	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310078	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-014.sanfastq.gz	The GenePool, University of Edinburgh	5765797	294055647	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310078.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323178	E-MTAB-1720:Control C	E-MTAB-1720:Control C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp11 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283443	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-048	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-048	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310187	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-048.sanfastq.gz	The GenePool, University of Edinburgh	4931318	251497218	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310187.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323179	E-MTAB-1720:OS+NS C	E-MTAB-1720:OS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp26 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283427	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-044	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-044	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310115	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-044.sanfastq.gz	The GenePool, University of Edinburgh	4863852	248056452	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310115.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323176	E-MTAB-1720:OS+XS+NS B	E-MTAB-1720:OS+XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp31 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283467	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-037	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-037	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310129	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-037.sanfastq.gz	The GenePool, University of Edinburgh	2523981	128723031	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310129.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323172	E-MTAB-1720:NS C	E-MTAB-1720:NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp20 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283346	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-050	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-050	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310195	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-050.sanfastq.gz	The GenePool, University of Edinburgh	6747177	344106027	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310195.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323187	E-MTAB-1720:OS D	E-MTAB-1720:OS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp15 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283320	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-043	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-043	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310164	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-043.sanfastq.gz	The GenePool, University of Edinburgh	10540764	537578964	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310164.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323169	E-MTAB-1720:OS+NS D	E-MTAB-1720:OS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp27 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283312	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-018	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-018	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310108	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-018.sanfastq.gz	The GenePool, University of Edinburgh	1635469	83408919	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310108.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323190	E-MTAB-1720:XS D	E-MTAB-1720:XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp18 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283392	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-016	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-016	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310082	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-016.sanfastq.gz	The GenePool, University of Edinburgh	4240282	216254382	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310082.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323179	E-MTAB-1720:OS+NS C	E-MTAB-1720:OS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp26 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283407	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-044	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-044	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310106	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-044.sanfastq.gz	The GenePool, University of Edinburgh	3118401	159038451	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310106.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323175	E-MTAB-1720:Control D	E-MTAB-1720:Control D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp12 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283292	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-012	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-012	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310003	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-012.sanfastq.gz	The GenePool, University of Edinburgh	1667838	85059738	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310003.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323179	E-MTAB-1720:OS+NS C	E-MTAB-1720:OS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp26 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283368	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-044	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-044	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310150	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-044.sanfastq.gz	The GenePool, University of Edinburgh	4636481	236460531	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310150.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323177	E-MTAB-1720:XS+NS D	E-MTAB-1720:XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp30 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283356	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-014	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-014	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310083	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-014.sanfastq.gz	The GenePool, University of Edinburgh	4889904	249385104	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310083.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323175	E-MTAB-1720:Control D	E-MTAB-1720:Control D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp12 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283275	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-012	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-012	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310197	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-012.sanfastq.gz	The GenePool, University of Edinburgh	6007755	306395505	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310197.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323190	E-MTAB-1720:XS D	E-MTAB-1720:XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp18 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283453	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-016	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-016	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310124	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-016.sanfastq.gz	The GenePool, University of Edinburgh	5946588	303275988	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310124.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323190	E-MTAB-1720:XS D	E-MTAB-1720:XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp18 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283343	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-016	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-016	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310043	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-016.sanfastq.gz	The GenePool, University of Edinburgh	5034344	256751544	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310043.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323182	E-MTAB-1720:Control B	E-MTAB-1720:Control B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp10 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283285	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-040	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-040	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310142	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-040.sanfastq.gz	The GenePool, University of Edinburgh	3989035	203440785	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310142.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323186	E-MTAB-1720:XS+NS C	E-MTAB-1720:XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp29 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283416	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-011	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-011	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310185	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-011.sanfastq.gz	The GenePool, University of Edinburgh	4148334	211565034	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310185.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323176	E-MTAB-1720:OS+XS+NS B	E-MTAB-1720:OS+XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp31 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283398	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-037	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-037	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR309999	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-037.sanfastq.gz	The GenePool, University of Edinburgh	1702861	86845911	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR309999.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323173	E-MTAB-1720:NS D	E-MTAB-1720:NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp21 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283419	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-013	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-013	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310057	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-013.sanfastq.gz	The GenePool, University of Edinburgh	6024454	307247154	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310057.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323179	E-MTAB-1720:OS+NS C	E-MTAB-1720:OS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp26 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283335	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-044	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-044	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310069	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-044.sanfastq.gz	The GenePool, University of Edinburgh	5419727	276406077	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310069.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323181	E-MTAB-1720:OS+XS+NS D	E-MTAB-1720:OS+XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp33 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283310	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-045	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-045	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310058	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-045.sanfastq.gz	The GenePool, University of Edinburgh	4163045	212315295	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310058.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323173	E-MTAB-1720:NS D	E-MTAB-1720:NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp21 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283430	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-013	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-013	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310074	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-013.sanfastq.gz	The GenePool, University of Edinburgh	4827123	246183273	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310074.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323174	E-MTAB-1720:OS+XS D	E-MTAB-1720:OS+XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp24 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283274	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-020	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-020	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310094	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-020.sanfastq.gz	The GenePool, University of Edinburgh	5510279	281024229	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310094.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323175	E-MTAB-1720:Control D	E-MTAB-1720:Control D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp12 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283332	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-012	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-012	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310112	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-012.sanfastq.gz	The GenePool, University of Edinburgh	5131082	261685182	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310112.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323178	E-MTAB-1720:Control C	E-MTAB-1720:Control C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp11 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283466	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-048	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-048	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310173	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-048.sanfastq.gz	The GenePool, University of Edinburgh	1681581	85760631	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310173.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323181	E-MTAB-1720:OS+XS+NS D	E-MTAB-1720:OS+XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp33 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283385	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-045	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-045	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310077	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-045.sanfastq.gz	The GenePool, University of Edinburgh	5970359	304488309	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310077.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323188	E-MTAB-1720:OS+XS B	E-MTAB-1720:OS+XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp22 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283308	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-041	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-041	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310149	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-041.sanfastq.gz	The GenePool, University of Edinburgh	5368576	273797376	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310149.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323186	E-MTAB-1720:XS+NS C	E-MTAB-1720:XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp29 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283339	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-011	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-011	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310127	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-011.sanfastq.gz	The GenePool, University of Edinburgh	4977120	253833120	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310127.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323188	E-MTAB-1720:OS+XS B	E-MTAB-1720:OS+XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp22 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283307	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-041	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-041	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310166	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-041.sanfastq.gz	The GenePool, University of Edinburgh	3084519	157310469	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310166.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323180	E-MTAB-1720:NS B	E-MTAB-1720:NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp19 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283455	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-036	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-036	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310145	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-036.sanfastq.gz	The GenePool, University of Edinburgh	789409	40259859	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310145.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323169	E-MTAB-1720:OS+NS D	E-MTAB-1720:OS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp27 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283296	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-018	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-018	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR309992	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-018.sanfastq.gz	The GenePool, University of Edinburgh	3918710	199854210	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR309992.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323175	E-MTAB-1720:Control D	E-MTAB-1720:Control D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp12 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283463	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-012	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-012	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310054	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-012.sanfastq.gz	The GenePool, University of Edinburgh	6132289	312746739	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310054.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323174	E-MTAB-1720:OS+XS D	E-MTAB-1720:OS+XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp24 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283344	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-020	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-020	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310172	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-020.sanfastq.gz	The GenePool, University of Edinburgh	1546457	78869307	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310172.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323174	E-MTAB-1720:OS+XS D	E-MTAB-1720:OS+XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp24 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283276	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-020	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-020	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310006	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-020.sanfastq.gz	The GenePool, University of Edinburgh	5289870	269783370	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310006.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323175	E-MTAB-1720:Control D	E-MTAB-1720:Control D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp12 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283460	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-012	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-012	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310008	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-012.sanfastq.gz	The GenePool, University of Edinburgh	8012132	408618732	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310008.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323190	E-MTAB-1720:XS D	E-MTAB-1720:XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp18 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283418	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-016	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-016	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310028	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-016.sanfastq.gz	The GenePool, University of Edinburgh	1469730	74956230	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310028.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323183	E-MTAB-1720:OS C	E-MTAB-1720:OS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp14 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283365	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-049	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-049	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310118	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-049.sanfastq.gz	The GenePool, University of Edinburgh	9524054	485726754	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310118.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323176	E-MTAB-1720:OS+XS+NS B	E-MTAB-1720:OS+XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp31 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283383	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-037	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-037	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310059	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-037.sanfastq.gz	The GenePool, University of Edinburgh	2283478	116457378	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310059.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323175	E-MTAB-1720:Control D	E-MTAB-1720:Control D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp12 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283452	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-012	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-012	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310170	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-012.sanfastq.gz	The GenePool, University of Edinburgh	3930165	200438415	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310170.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323172	E-MTAB-1720:NS C	E-MTAB-1720:NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp20 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283396	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-050	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-050	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310029	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-050.sanfastq.gz	The GenePool, University of Edinburgh	7075194	360834894	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310029.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323181	E-MTAB-1720:OS+XS+NS D	E-MTAB-1720:OS+XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp33 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283348	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-045	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-045	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310143	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-045.sanfastq.gz	The GenePool, University of Edinburgh	1721374	87790074	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310143.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323184	E-MTAB-1720:XS C	E-MTAB-1720:XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp17 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283397	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-047	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-047	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310100	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-047.sanfastq.gz	The GenePool, University of Edinburgh	7305596	372585396	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310100.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323179	E-MTAB-1720:OS+NS C	E-MTAB-1720:OS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp26 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283378	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-044	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-044	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310183	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-044.sanfastq.gz	The GenePool, University of Edinburgh	5875480	299649480	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310183.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323185	E-MTAB-1720:OS+NS B	E-MTAB-1720:OS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp25 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283322	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-015	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-015	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310017	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-015.sanfastq.gz	The GenePool, University of Edinburgh	3958965	201907215	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310017.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323189	E-MTAB-1720:OS+XS+NS C	E-MTAB-1720:OS+XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp32 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283450	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-017	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-017	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310024	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-017.sanfastq.gz	The GenePool, University of Edinburgh	4653918	237349818	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310024.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323174	E-MTAB-1720:OS+XS D	E-MTAB-1720:OS+XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp24 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283324	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-020	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-020	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310025	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-020.sanfastq.gz	The GenePool, University of Edinburgh	6647435	339019185	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310025.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323175	E-MTAB-1720:Control D	E-MTAB-1720:Control D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp12 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283352	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-012	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-012	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310095	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-012.sanfastq.gz	The GenePool, University of Edinburgh	7618034	388519734	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310095.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323180	E-MTAB-1720:NS B	E-MTAB-1720:NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp19 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283311	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-036	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-036	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310188	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-036.sanfastq.gz	The GenePool, University of Edinburgh	2888910	147334410	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310188.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323174	E-MTAB-1720:OS+XS D	E-MTAB-1720:OS+XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp24 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283479	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-020	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-020	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310116	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-020.sanfastq.gz	The GenePool, University of Edinburgh	4450664	226983864	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310116.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323177	E-MTAB-1720:XS+NS D	E-MTAB-1720:XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp30 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283380	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-014	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-014	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310113	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-014.sanfastq.gz	The GenePool, University of Edinburgh	4138086	211042386	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310113.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323173	E-MTAB-1720:NS D	E-MTAB-1720:NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp21 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283273	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-013	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-013	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR309990	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-013.sanfastq.gz	The GenePool, University of Edinburgh	3852539	196479489	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR309990.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323184	E-MTAB-1720:XS C	E-MTAB-1720:XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp17 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283469	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-047	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-047	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310193	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-047.sanfastq.gz	The GenePool, University of Edinburgh	5638515	287564265	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310193.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323176	E-MTAB-1720:OS+XS+NS B	E-MTAB-1720:OS+XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp31 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283438	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-037	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-037	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310198	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-037.sanfastq.gz	The GenePool, University of Edinburgh	2605808	132896208	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310198.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323188	E-MTAB-1720:OS+XS B	E-MTAB-1720:OS+XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp22 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283409	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-041	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-041	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310122	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-041.sanfastq.gz	The GenePool, University of Edinburgh	4302541	219429591	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310122.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323188	E-MTAB-1720:OS+XS B	E-MTAB-1720:OS+XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp22 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283408	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-041	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-041	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310079	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-041.sanfastq.gz	The GenePool, University of Edinburgh	4274469	217997919	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310079.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323187	E-MTAB-1720:OS D	E-MTAB-1720:OS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp15 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283454	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-043	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-043	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310152	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-043.sanfastq.gz	The GenePool, University of Edinburgh	8292301	422907351	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310152.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323182	E-MTAB-1720:Control B	E-MTAB-1720:Control B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp10 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283446	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-040	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-040	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310146	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-040.sanfastq.gz	The GenePool, University of Edinburgh	4767655	243150405	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310146.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323175	E-MTAB-1720:Control D	E-MTAB-1720:Control D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp12 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283405	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-012	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-012	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310068	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-012.sanfastq.gz	The GenePool, University of Edinburgh	6975272	355738872	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310068.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323177	E-MTAB-1720:XS+NS D	E-MTAB-1720:XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp30 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283428	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-014	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-014	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310039	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-014.sanfastq.gz	The GenePool, University of Edinburgh	7487803	381877953	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310039.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323181	E-MTAB-1720:OS+XS+NS D	E-MTAB-1720:OS+XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp33 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283395	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-045	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-045	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310171	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-045.sanfastq.gz	The GenePool, University of Edinburgh	6036830	307878330	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310171.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323184	E-MTAB-1720:XS C	E-MTAB-1720:XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp17 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283291	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-047	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-047	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310009	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-047.sanfastq.gz	The GenePool, University of Edinburgh	4774313	243489963	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310009.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323185	E-MTAB-1720:OS+NS B	E-MTAB-1720:OS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp25 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283373	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-015	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-015	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310158	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-015.sanfastq.gz	The GenePool, University of Edinburgh	3666504	186991704	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310158.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323178	E-MTAB-1720:Control C	E-MTAB-1720:Control C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp11 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283472	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-048	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-048	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310128	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-048.sanfastq.gz	The GenePool, University of Edinburgh	7238267	369151617	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310128.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323169	E-MTAB-1720:OS+NS D	E-MTAB-1720:OS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp27 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283391	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-018	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-018	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310107	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-018.sanfastq.gz	The GenePool, University of Edinburgh	4750924	242297124	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310107.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323183	E-MTAB-1720:OS C	E-MTAB-1720:OS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp14 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283413	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-049	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-049	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310181	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-049.sanfastq.gz	The GenePool, University of Edinburgh	8433188	430092588	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310181.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323184	E-MTAB-1720:XS C	E-MTAB-1720:XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp17 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283394	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-047	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-047	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310137	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-047.sanfastq.gz	The GenePool, University of Edinburgh	1664053	84866703	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310137.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323172	E-MTAB-1720:NS C	E-MTAB-1720:NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp20 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283358	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-050	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-050	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310034	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-050.sanfastq.gz	The GenePool, University of Edinburgh	4379191	223338741	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310034.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323172	E-MTAB-1720:NS C	E-MTAB-1720:NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp20 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283456	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-050	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-050	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310092	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-050.sanfastq.gz	The GenePool, University of Edinburgh	7697173	392555823	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310092.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323183	E-MTAB-1720:OS C	E-MTAB-1720:OS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp14 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283287	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-049	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-049	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310051	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-049.sanfastq.gz	The GenePool, University of Edinburgh	8505912	433801512	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310051.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323183	E-MTAB-1720:OS C	E-MTAB-1720:OS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp14 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283388	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-049	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-049	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310030	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-049.sanfastq.gz	The GenePool, University of Edinburgh	2554040	130256040	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310030.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323172	E-MTAB-1720:NS C	E-MTAB-1720:NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp20 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283429	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-050	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-050	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310176	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-050.sanfastq.gz	The GenePool, University of Edinburgh	6140591	313170141	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310176.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323187	E-MTAB-1720:OS D	E-MTAB-1720:OS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp15 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283403	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-043	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-043	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310019	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-043.sanfastq.gz	The GenePool, University of Edinburgh	6950133	354456783	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310019.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323185	E-MTAB-1720:OS+NS B	E-MTAB-1720:OS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp25 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283351	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-015	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-015	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310021	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-015.sanfastq.gz	The GenePool, University of Edinburgh	3353619	171034569	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310021.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323177	E-MTAB-1720:XS+NS D	E-MTAB-1720:XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp30 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283477	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-014	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-014	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310194	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-014.sanfastq.gz	The GenePool, University of Edinburgh	1720648	87753048	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310194.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323186	E-MTAB-1720:XS+NS C	E-MTAB-1720:XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp29 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283471	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-011	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-011	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR309998	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-011.sanfastq.gz	The GenePool, University of Edinburgh	4888808	249329208	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR309998.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323184	E-MTAB-1720:XS C	E-MTAB-1720:XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp17 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283289	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-047	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-047	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310140	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-047.sanfastq.gz	The GenePool, University of Edinburgh	3972361	202590411	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310140.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323184	E-MTAB-1720:XS C	E-MTAB-1720:XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp17 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283326	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-047	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-047	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310014	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-047.sanfastq.gz	The GenePool, University of Edinburgh	6057319	308923269	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310014.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323183	E-MTAB-1720:OS C	E-MTAB-1720:OS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp14 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283457	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-049	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-049	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR309989	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-049.sanfastq.gz	The GenePool, University of Edinburgh	6073676	309757476	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR309989.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323182	E-MTAB-1720:Control B	E-MTAB-1720:Control B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp10 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283478	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-040	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-040	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310016	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-040.sanfastq.gz	The GenePool, University of Edinburgh	2651318	135217218	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310016.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323172	E-MTAB-1720:NS C	E-MTAB-1720:NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp20 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283272	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-050	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-050	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310055	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-050.sanfastq.gz	The GenePool, University of Edinburgh	6169780	314658780	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310055.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323183	E-MTAB-1720:OS C	E-MTAB-1720:OS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp14 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283342	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-049	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-049	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310063	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-049.sanfastq.gz	The GenePool, University of Edinburgh	7160622	365191722	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310063.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323189	E-MTAB-1720:OS+XS+NS C	E-MTAB-1720:OS+XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp32 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283444	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-017	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-017	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310157	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-017.sanfastq.gz	The GenePool, University of Edinburgh	5520892	281565492	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310157.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323188	E-MTAB-1720:OS+XS B	E-MTAB-1720:OS+XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp22 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283340	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-041	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-041	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310168	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-041.sanfastq.gz	The GenePool, University of Edinburgh	4685546	238962846	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310168.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323181	E-MTAB-1720:OS+XS+NS D	E-MTAB-1720:OS+XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp33 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283284	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-045	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-045	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310090	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-045.sanfastq.gz	The GenePool, University of Edinburgh	6783419	345954369	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310090.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323189	E-MTAB-1720:OS+XS+NS C	E-MTAB-1720:OS+XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp32 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283367	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-017	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-017	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310002	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-017.sanfastq.gz	The GenePool, University of Edinburgh	7252909	369898359	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310002.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323184	E-MTAB-1720:XS C	E-MTAB-1720:XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp17 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283362	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-047	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-047	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310167	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-047.sanfastq.gz	The GenePool, University of Edinburgh	5690819	290231769	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310167.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323187	E-MTAB-1720:OS D	E-MTAB-1720:OS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp15 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283432	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-043	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-043	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310042	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-043.sanfastq.gz	The GenePool, University of Edinburgh	9185989	468485439	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310042.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323190	E-MTAB-1720:XS D	E-MTAB-1720:XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp18 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283474	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-016	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-016	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310160	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-016.sanfastq.gz	The GenePool, University of Edinburgh	5089183	259548333	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310160.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323187	E-MTAB-1720:OS D	E-MTAB-1720:OS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp15 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283299	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-043	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-043	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310022	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-043.sanfastq.gz	The GenePool, University of Edinburgh	5708480	291132480	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310022.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323182	E-MTAB-1720:Control B	E-MTAB-1720:Control B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp10 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283331	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-040	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-040	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310001	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-040.sanfastq.gz	The GenePool, University of Edinburgh	1121403	57191553	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310001.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323186	E-MTAB-1720:XS+NS C	E-MTAB-1720:XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp29 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283441	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-011	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-011	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310062	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-011.sanfastq.gz	The GenePool, University of Edinburgh	5234248	266946648	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310062.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323180	E-MTAB-1720:NS B	E-MTAB-1720:NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp19 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283417	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-036	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-036	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR309986	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-036.sanfastq.gz	The GenePool, University of Edinburgh	2709906	138205206	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR309986.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323187	E-MTAB-1720:OS D	E-MTAB-1720:OS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp15 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283447	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-043	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-043	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310178	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-043.sanfastq.gz	The GenePool, University of Edinburgh	8684354	442902054	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310178.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323188	E-MTAB-1720:OS+XS B	E-MTAB-1720:OS+XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp22 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283475	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-041	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-041	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310144	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-041.sanfastq.gz	The GenePool, University of Edinburgh	3613786	184303086	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310144.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323182	E-MTAB-1720:Control B	E-MTAB-1720:Control B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp10 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283389	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-040	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-040	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310097	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-040.sanfastq.gz	The GenePool, University of Edinburgh	3057021	155908071	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310097.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323171	E-MTAB-1720:OS B	E-MTAB-1720:OS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp13 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283355	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-038	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-038	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310073	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-038.sanfastq.gz	The GenePool, University of Edinburgh	6072086	309676386	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310073.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323189	E-MTAB-1720:OS+XS+NS C	E-MTAB-1720:OS+XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp32 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283305	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-017	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-017	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310098	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-017.sanfastq.gz	The GenePool, University of Edinburgh	6855815	349646565	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310098.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323182	E-MTAB-1720:Control B	E-MTAB-1720:Control B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp10 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283325	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-040	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-040	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310117	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-040.sanfastq.gz	The GenePool, University of Edinburgh	3610363	184128513	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310117.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323184	E-MTAB-1720:XS C	E-MTAB-1720:XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp17 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283337	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-047	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-047	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310151	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-047.sanfastq.gz	The GenePool, University of Edinburgh	6271581	319850631	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310151.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323186	E-MTAB-1720:XS+NS C	E-MTAB-1720:XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp29 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283327	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-011	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-011	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310036	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-011.sanfastq.gz	The GenePool, University of Edinburgh	3395009	173145459	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310036.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323185	E-MTAB-1720:OS+NS B	E-MTAB-1720:OS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp25 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283381	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-015	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-015	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310005	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-015.sanfastq.gz	The GenePool, University of Edinburgh	1010081	51514131	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310005.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323190	E-MTAB-1720:XS D	E-MTAB-1720:XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp18 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283481	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-016	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-016	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310189	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-016.sanfastq.gz	The GenePool, University of Edinburgh	6869685	350353935	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310189.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323181	E-MTAB-1720:OS+XS+NS D	E-MTAB-1720:OS+XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp33 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283436	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-045	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-045	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310155	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-045.sanfastq.gz	The GenePool, University of Edinburgh	5057401	257927451	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310155.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323180	E-MTAB-1720:NS B	E-MTAB-1720:NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp19 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283400	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-036	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-036	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310048	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-036.sanfastq.gz	The GenePool, University of Edinburgh	2689005	137139255	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310048.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323183	E-MTAB-1720:OS C	E-MTAB-1720:OS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp14 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283329	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-049	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-049	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310139	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-049.sanfastq.gz	The GenePool, University of Edinburgh	11014586	561743886	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310139.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323177	E-MTAB-1720:XS+NS D	E-MTAB-1720:XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp30 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283406	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-014	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-014	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310105	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-014.sanfastq.gz	The GenePool, University of Edinburgh	5821724	296907924	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310105.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323189	E-MTAB-1720:OS+XS+NS C	E-MTAB-1720:OS+XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp32 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283459	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-017	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-017	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310102	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-017.sanfastq.gz	The GenePool, University of Edinburgh	5491249	280053699	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310102.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323188	E-MTAB-1720:OS+XS B	E-MTAB-1720:OS+XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp22 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283375	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-041	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-041	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310110	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-041.sanfastq.gz	The GenePool, University of Edinburgh	5674391	289393941	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310110.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323188	E-MTAB-1720:OS+XS B	E-MTAB-1720:OS+XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp22 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283300	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-041	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-041	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310093	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-041.sanfastq.gz	The GenePool, University of Edinburgh	1289303	65754453	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310093.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323171	E-MTAB-1720:OS B	E-MTAB-1720:OS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp13 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283333	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-038	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-038	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310186	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-038.sanfastq.gz	The GenePool, University of Edinburgh	5305637	270587487	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310186.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323171	E-MTAB-1720:OS B	E-MTAB-1720:OS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp13 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283271	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-038	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-038	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310044	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-038.sanfastq.gz	The GenePool, University of Edinburgh	3294115	167999865	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310044.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323181	E-MTAB-1720:OS+XS+NS D	E-MTAB-1720:OS+XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp33 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283462	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-045	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-045	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR309985	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-045.sanfastq.gz	The GenePool, University of Edinburgh	6359072	324312672	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR309985.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323184	E-MTAB-1720:XS C	E-MTAB-1720:XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp17 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283321	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-047	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-047	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310049	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-047.sanfastq.gz	The GenePool, University of Edinburgh	6950020	354451020	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310049.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323185	E-MTAB-1720:OS+NS B	E-MTAB-1720:OS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp25 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283425	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-015	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-015	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310070	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-015.sanfastq.gz	The GenePool, University of Edinburgh	4377021	223228071	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310070.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323185	E-MTAB-1720:OS+NS B	E-MTAB-1720:OS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp25 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283290	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-015	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-015	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR309997	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-015.sanfastq.gz	The GenePool, University of Edinburgh	2421585	123500835	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR309997.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323186	E-MTAB-1720:XS+NS C	E-MTAB-1720:XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp29 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283330	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-011	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-011	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310191	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-011.sanfastq.gz	The GenePool, University of Edinburgh	5766268	294079668	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310191.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323167	E-MTAB-1720:XS+NS B	E-MTAB-1720:XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp28 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283437	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-042	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-042	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310012	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-042.sanfastq.gz	The GenePool, University of Edinburgh	2270583	115799733	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310012.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323189	E-MTAB-1720:OS+XS+NS C	E-MTAB-1720:OS+XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp32 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283410	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-017	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-017	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310182	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-017.sanfastq.gz	The GenePool, University of Edinburgh	3852115	196457865	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310182.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323187	E-MTAB-1720:OS D	E-MTAB-1720:OS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp15 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283319	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-043	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-043	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310179	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-043.sanfastq.gz	The GenePool, University of Edinburgh	2378474	121302174	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310179.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323176	E-MTAB-1720:OS+XS+NS B	E-MTAB-1720:OS+XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp31 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283288	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-037	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-037	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310200	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-037.sanfastq.gz	The GenePool, University of Edinburgh	2262112	115367712	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310200.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323187	E-MTAB-1720:OS D	E-MTAB-1720:OS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp15 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283393	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-043	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-043	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310084	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-043.sanfastq.gz	The GenePool, University of Edinburgh	9979899	508974849	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310084.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323176	E-MTAB-1720:OS+XS+NS B	E-MTAB-1720:OS+XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp31 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283366	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-037	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-037	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310103	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-037.sanfastq.gz	The GenePool, University of Edinburgh	724104	36929304	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310103.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323167	E-MTAB-1720:XS+NS B	E-MTAB-1720:XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp28 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283445	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-042	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-042	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310199	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-042.sanfastq.gz	The GenePool, University of Edinburgh	3534071	180237621	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310199.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323178	E-MTAB-1720:Control C	E-MTAB-1720:Control C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp11 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283281	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-048	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-048	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310135	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-048.sanfastq.gz	The GenePool, University of Edinburgh	7663171	390821721	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310135.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323181	E-MTAB-1720:OS+XS+NS D	E-MTAB-1720:OS+XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp33 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283354	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-045	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-045	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310076	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-045.sanfastq.gz	The GenePool, University of Edinburgh	7807464	398180664	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310076.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323181	E-MTAB-1720:OS+XS+NS D	E-MTAB-1720:OS+XS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp33 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283402	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-045	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-045	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310031	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-045.sanfastq.gz	The GenePool, University of Edinburgh	7415590	378195090	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310031.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323186	E-MTAB-1720:XS+NS C	E-MTAB-1720:XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp29 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283420	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-011	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-011	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR309987	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-011.sanfastq.gz	The GenePool, University of Edinburgh	1422448	72544848	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR309987.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323186	E-MTAB-1720:XS+NS C	E-MTAB-1720:XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp29 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283294	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-011	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-011	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310066	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-011.sanfastq.gz	The GenePool, University of Edinburgh	6205518	316481418	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310066.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323183	E-MTAB-1720:OS C	E-MTAB-1720:OS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp14 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283399	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-049	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-049	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310159	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-049.sanfastq.gz	The GenePool, University of Edinburgh	10408484	530832684	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310159.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323173	E-MTAB-1720:NS D	E-MTAB-1720:NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp21 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283303	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-013	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-013	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310038	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-013.sanfastq.gz	The GenePool, University of Edinburgh	6439851	328432401	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310038.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323189	E-MTAB-1720:OS+XS+NS C	E-MTAB-1720:OS+XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp32 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283334	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-017	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-017	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310035	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-017.sanfastq.gz	The GenePool, University of Edinburgh	6268410	319688910	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310035.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323176	E-MTAB-1720:OS+XS+NS B	E-MTAB-1720:OS+XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp31 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283298	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-037	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-037	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310123	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-037.sanfastq.gz	The GenePool, University of Edinburgh	2815649	143598099	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310123.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323168	E-MTAB-1720:XS B	E-MTAB-1720:XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp16 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283360	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-019	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-019	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310087	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-019.sanfastq.gz	The GenePool, University of Edinburgh	7126452	363449052	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310087.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323168	E-MTAB-1720:XS B	E-MTAB-1720:XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp16 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283415	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-019	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-019	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310026	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-019.sanfastq.gz	The GenePool, University of Edinburgh	3719461	189692511	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310026.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323167	E-MTAB-1720:XS+NS B	E-MTAB-1720:XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp28 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283414	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-042	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-042	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310061	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-042.sanfastq.gz	The GenePool, University of Edinburgh	935233	47696883	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310061.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323167	E-MTAB-1720:XS+NS B	E-MTAB-1720:XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp28 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283440	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-042	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-042	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310196	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-042.sanfastq.gz	The GenePool, University of Edinburgh	4273807	217964157	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310196.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323167	E-MTAB-1720:XS+NS B	E-MTAB-1720:XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp28 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283411	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-042	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-042	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310020	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-042.sanfastq.gz	The GenePool, University of Edinburgh	4042561	206170611	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310020.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323171	E-MTAB-1720:OS B	E-MTAB-1720:OS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp13 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283316	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-038	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-038	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310032	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-038.sanfastq.gz	The GenePool, University of Edinburgh	5013554	255691254	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310032.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323171	E-MTAB-1720:OS B	E-MTAB-1720:OS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp13 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283370	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-038	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-038	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310075	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-038.sanfastq.gz	The GenePool, University of Edinburgh	5721894	291816594	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310075.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323186	E-MTAB-1720:XS+NS C	E-MTAB-1720:XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp29 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283336	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-011	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-011	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310161	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-011.sanfastq.gz	The GenePool, University of Edinburgh	6517068	332370468	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310161.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323187	E-MTAB-1720:OS D	E-MTAB-1720:OS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp15 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283350	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-043	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-043	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310134	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-043.sanfastq.gz	The GenePool, University of Edinburgh	8181922	417278022	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310134.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323185	E-MTAB-1720:OS+NS B	E-MTAB-1720:OS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp25 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283338	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-015	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-015	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310120	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-015.sanfastq.gz	The GenePool, University of Edinburgh	4591516	234167316	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310120.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323189	E-MTAB-1720:OS+XS+NS C	E-MTAB-1720:OS+XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp32 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283323	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-017	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-017	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310071	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-017.sanfastq.gz	The GenePool, University of Edinburgh	5969291	304433841	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310071.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323188	E-MTAB-1720:OS+XS B	E-MTAB-1720:OS+XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp22 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283435	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-041	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-041	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310052	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-041.sanfastq.gz	The GenePool, University of Edinburgh	4997442	254869542	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310052.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323168	E-MTAB-1720:XS B	E-MTAB-1720:XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp16 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283458	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-019	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-019	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310047	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-019.sanfastq.gz	The GenePool, University of Edinburgh	5361781	273450831	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310047.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323168	E-MTAB-1720:XS B	E-MTAB-1720:XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp16 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283422	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-019	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-019	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310050	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-019.sanfastq.gz	The GenePool, University of Edinburgh	5311512	270887112	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310050.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323167	E-MTAB-1720:XS+NS B	E-MTAB-1720:XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp28 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283442	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-042	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-042	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310111	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-042.sanfastq.gz	The GenePool, University of Edinburgh	3217806	164108106	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310111.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323169	E-MTAB-1720:OS+NS D	E-MTAB-1720:OS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp27 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283293	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-018	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-018	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310175	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-018.sanfastq.gz	The GenePool, University of Edinburgh	7380942	376428042	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310175.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323168	E-MTAB-1720:XS B	E-MTAB-1720:XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp16 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283426	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-019	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-019	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310109	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-019.sanfastq.gz	The GenePool, University of Edinburgh	6688043	341090193	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310109.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323168	E-MTAB-1720:XS B	E-MTAB-1720:XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp16 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283347	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-019	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-019	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310085	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-019.sanfastq.gz	The GenePool, University of Edinburgh	1557410	79427910	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310085.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323180	E-MTAB-1720:NS B	E-MTAB-1720:NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp19 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283421	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-036	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-036	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310184	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-036.sanfastq.gz	The GenePool, University of Edinburgh	3351782	170940882	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310184.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323178	E-MTAB-1720:Control C	E-MTAB-1720:Control C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp11 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283448	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-048	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-048	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310162	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-048.sanfastq.gz	The GenePool, University of Edinburgh	5828434	297250134	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310162.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323171	E-MTAB-1720:OS B	E-MTAB-1720:OS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp13 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283278	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-038	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-038	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310121	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-038.sanfastq.gz	The GenePool, University of Edinburgh	4754055	242456805	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310121.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323182	E-MTAB-1720:Control B	E-MTAB-1720:Control B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp10 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283349	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-040	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-040	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310131	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-040.sanfastq.gz	The GenePool, University of Edinburgh	4209376	214678176	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310131.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323185	E-MTAB-1720:OS+NS B	E-MTAB-1720:OS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp25 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283439	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-015	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-015	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310088	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-015.sanfastq.gz	The GenePool, University of Edinburgh	2835040	144587040	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310088.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323183	E-MTAB-1720:OS C	E-MTAB-1720:OS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp14 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283295	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-049	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-049	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310072	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-049.sanfastq.gz	The GenePool, University of Edinburgh	9384038	478585938	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310072.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323190	E-MTAB-1720:XS D	E-MTAB-1720:XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp18 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283480	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-016	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-016	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310153	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-016.sanfastq.gz	The GenePool, University of Edinburgh	5414869	276158319	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310153.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323173	E-MTAB-1720:NS D	E-MTAB-1720:NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp21 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283314	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-013	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-013	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310114	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-013.sanfastq.gz	The GenePool, University of Edinburgh	7103991	362303541	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310114.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323172	E-MTAB-1720:NS C	E-MTAB-1720:NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp20 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283318	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-050	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-050	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310015	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-050.sanfastq.gz	The GenePool, University of Edinburgh	8028601	409458651	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310015.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323167	E-MTAB-1720:XS+NS B	E-MTAB-1720:XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp28 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283270	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-042	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-042	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310138	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-042.sanfastq.gz	The GenePool, University of Edinburgh	2700282	137714382	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310138.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323169	E-MTAB-1720:OS+NS D	E-MTAB-1720:OS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp27 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283304	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-018	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-018	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310053	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-018.sanfastq.gz	The GenePool, University of Edinburgh	5610358	286128258	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310053.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323168	E-MTAB-1720:XS B	E-MTAB-1720:XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp16 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283267	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-019	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-019	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310010	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-019.sanfastq.gz	The GenePool, University of Edinburgh	5757347	293624697	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310010.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323170	E-MTAB-1720:OS+XS C	E-MTAB-1720:OS+XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp23 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283269	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-046	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-046	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310096	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-046.sanfastq.gz	The GenePool, University of Edinburgh	1185767	60474117	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310096.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323168	E-MTAB-1720:XS B	E-MTAB-1720:XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp16 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283372	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-019	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-019	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310148	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-019.sanfastq.gz	The GenePool, University of Edinburgh	6119201	312079251	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310148.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323178	E-MTAB-1720:Control C	E-MTAB-1720:Control C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp11 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283461	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-048	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-048	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310136	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-048.sanfastq.gz	The GenePool, University of Edinburgh	6259898	319254798	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310136.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323172	E-MTAB-1720:NS C	E-MTAB-1720:NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp20 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283470	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-050	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-050	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310004	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-050.sanfastq.gz	The GenePool, University of Edinburgh	5205216	265466016	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310004.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323178	E-MTAB-1720:Control C	E-MTAB-1720:Control C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp11 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283371	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-048	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-048	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310056	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-048.sanfastq.gz	The GenePool, University of Edinburgh	4077840	207969840	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310056.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323174	E-MTAB-1720:OS+XS D	E-MTAB-1720:OS+XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp24 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283374	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-020	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-020	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310007	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-020.sanfastq.gz	The GenePool, University of Edinburgh	6128624	312559824	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310007.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323174	E-MTAB-1720:OS+XS D	E-MTAB-1720:OS+XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp24 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283280	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-020	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-020	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310190	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-020.sanfastq.gz	The GenePool, University of Edinburgh	5320220	271331220	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310190.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323173	E-MTAB-1720:NS D	E-MTAB-1720:NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp21 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283297	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-013	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-013	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310091	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-013.sanfastq.gz	The GenePool, University of Edinburgh	7466457	380789307	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310091.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323185	E-MTAB-1720:OS+NS B	E-MTAB-1720:OS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp25 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283341	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-015	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-015	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310067	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-015.sanfastq.gz	The GenePool, University of Edinburgh	3389718	172875618	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310067.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323169	E-MTAB-1720:OS+NS D	E-MTAB-1720:OS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp27 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283268	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-018	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-018	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310081	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-018.sanfastq.gz	The GenePool, University of Edinburgh	7001734	357088434	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310081.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323169	E-MTAB-1720:OS+NS D	E-MTAB-1720:OS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp27 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283412	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-018	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-018	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310130	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-018.sanfastq.gz	The GenePool, University of Edinburgh	5675414	289446114	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310130.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323170	E-MTAB-1720:OS+XS C	E-MTAB-1720:OS+XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp23 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283359	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-046	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-046	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310037	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-046.sanfastq.gz	The GenePool, University of Edinburgh	3843423	196014573	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310037.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323179	E-MTAB-1720:OS+NS C	E-MTAB-1720:OS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp26 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283282	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-044	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-044	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310180	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-044.sanfastq.gz	The GenePool, University of Edinburgh	4587935	233984685	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310180.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323179	E-MTAB-1720:OS+NS C	E-MTAB-1720:OS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp26 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283377	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-044	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-044	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310064	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-044.sanfastq.gz	The GenePool, University of Edinburgh	3894124	198600324	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310064.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323167	E-MTAB-1720:XS+NS B	E-MTAB-1720:XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp28 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283266	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-042	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-042	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310192	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-042.sanfastq.gz	The GenePool, University of Edinburgh	3188418	162609318	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310192.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323189	E-MTAB-1720:OS+XS+NS C	E-MTAB-1720:OS+XS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp32 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283353	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-017	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-017	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: DPTA nonoate || Experimental Factor: dose_3: 2.5 millimolar	ERR310174	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-017.sanfastq.gz	The GenePool, University of Edinburgh	1612644	82244844	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310174.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323190	E-MTAB-1720:XS D	E-MTAB-1720:XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp18 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283384	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-016	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-016	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310080	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-016.sanfastq.gz	The GenePool, University of Edinburgh	3523533	179700183	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310080.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323171	E-MTAB-1720:OS B	E-MTAB-1720:OS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp13 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283464	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-038	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-038	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310104	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-038.sanfastq.gz	The GenePool, University of Edinburgh	4003564	204181764	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310104.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323179	E-MTAB-1720:OS+NS C	E-MTAB-1720:OS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp26 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283423	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-044	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-044	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310040	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-044.sanfastq.gz	The GenePool, University of Edinburgh	6204623	316435773	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310040.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323170	E-MTAB-1720:OS+XS C	E-MTAB-1720:OS+XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp23 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283313	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-046	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-046	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310147	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-046.sanfastq.gz	The GenePool, University of Edinburgh	4776299	243591249	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310147.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323190	E-MTAB-1720:XS D	E-MTAB-1720:XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp18 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283361	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-016	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-016	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR309996	E-MTAB-1720:120426_0325_D0971ACXX_1_SA-PE-016.sanfastq.gz	The GenePool, University of Edinburgh	6509386	331978686	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR309996.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323174	E-MTAB-1720:OS+XS D	E-MTAB-1720:OS+XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp24 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283369	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-020	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-020	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310065	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-020.sanfastq.gz	The GenePool, University of Edinburgh	6991766	356580066	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310065.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323168	E-MTAB-1720:XS B	E-MTAB-1720:XS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp16 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283468	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-019	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-019	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310046	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-019.sanfastq.gz	The GenePool, University of Edinburgh	4520310	230535810	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310046.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323182	E-MTAB-1720:Control B	E-MTAB-1720:Control B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp10 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283363	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-040	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-040	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310099	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-040.sanfastq.gz	The GenePool, University of Edinburgh	3656644	186488844	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310099.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323170	E-MTAB-1720:OS+XS C	E-MTAB-1720:OS+XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp23 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283404	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-046	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-046	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310156	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-046.sanfastq.gz	The GenePool, University of Edinburgh	2801233	142862883	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310156.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323174	E-MTAB-1720:OS+XS D	E-MTAB-1720:OS+XS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp24 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283379	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-020	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-020	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR309993	E-MTAB-1720:120314_0166_D0814ACXX_3_SA-PE-020.sanfastq.gz	The GenePool, University of Edinburgh	3547130	180903630	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR309993.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323180	E-MTAB-1720:NS B	E-MTAB-1720:NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp19 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283364	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-036	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-036	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310060	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-036.sanfastq.gz	The GenePool, University of Edinburgh	3526457	179849307	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310060.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323169	E-MTAB-1720:OS+NS D	E-MTAB-1720:OS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp27 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283345	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-018	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-018	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310177	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-018.sanfastq.gz	The GenePool, University of Edinburgh	6351895	323946645	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310177.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323171	E-MTAB-1720:OS B	E-MTAB-1720:OS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp13 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283476	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-038	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-038	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR309995	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-038.sanfastq.gz	The GenePool, University of Edinburgh	1373944	70071144	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR309995.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323170	E-MTAB-1720:OS+XS C	E-MTAB-1720:OS+XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp23 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283315	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-046	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-046	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310119	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-046.sanfastq.gz	The GenePool, University of Edinburgh	3889555	198367305	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310119.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323170	E-MTAB-1720:OS+XS C	E-MTAB-1720:OS+XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp23 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283401	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-046	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-046	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR309991	E-MTAB-1720:120426_0325_D0971ACXX_3_SA-PE-046.sanfastq.gz	The GenePool, University of Edinburgh	5036990	256886490	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR309991.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323170	E-MTAB-1720:OS+XS C	E-MTAB-1720:OS+XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp23 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283387	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-046	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-046	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310101	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-046.sanfastq.gz	The GenePool, University of Edinburgh	3256132	166062732	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310101.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323178	E-MTAB-1720:Control C	E-MTAB-1720:Control C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp11 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283382	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-048	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-048	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310126	E-MTAB-1720:120215_0284_D082JACXX_6_SA-PE-048.sanfastq.gz	The GenePool, University of Edinburgh	5870927	299417277	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310126.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323170	E-MTAB-1720:OS+XS C	E-MTAB-1720:OS+XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp23 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283376	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-046	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-046	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310027	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-046.sanfastq.gz	The GenePool, University of Edinburgh	4232961	215881011	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310027.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323167	E-MTAB-1720:XS+NS B	E-MTAB-1720:XS+NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp28 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	XS+NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283302	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-042	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-042	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: hydrogen peroxide || Experimental Factor: dose_1: 5 millimolar || Experimental Factor: compound_2: DPTA nonoate || Experimental Factor: dose_2: 2.5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310086	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-042.sanfastq.gz	The GenePool, University of Edinburgh	3705249	188967699	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310086.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323170	E-MTAB-1720:OS+XS C	E-MTAB-1720:OS+XS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp23 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+XS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283424	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-046	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-046	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: hydrogen peroxide || Experimental Factor: dose_2: 5 millimolar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310154	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-046.sanfastq.gz	The GenePool, University of Edinburgh	4376126	223182426	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310154.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323178	E-MTAB-1720:Control C	E-MTAB-1720:Control C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp11 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	Control C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283449	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-048	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-048	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: n/a || Experimental Factor: dose_1: n/a n/a || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310163	E-MTAB-1720:120426_0325_D0971ACXX_2_SA-PE-048.sanfastq.gz	The GenePool, University of Edinburgh	6584839	335826789	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310163.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323180	E-MTAB-1720:NS B	E-MTAB-1720:NS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp19 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283306	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-036	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-036	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310033	E-MTAB-1720:120215_0284_D082JACXX_5_SA-PE-036.sanfastq.gz	The GenePool, University of Edinburgh	2288512	116714112	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310033.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323169	E-MTAB-1720:OS+NS D	E-MTAB-1720:OS+NS D	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp27 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS D	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283309	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-018	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-018	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310165	E-MTAB-1720:120314_0166_D0814ACXX_2_SA-PE-018.sanfastq.gz	The GenePool, University of Edinburgh	6020180	307029180	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310165.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323171	E-MTAB-1720:OS B	E-MTAB-1720:OS B	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp13 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283451	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-038	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-038	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: sodium chloride || Experimental Factor: dose_1: 1 molar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310023	E-MTAB-1720:120215_0284_D082JACXX_7_SA-PE-038.sanfastq.gz	The GenePool, University of Edinburgh	4707186	240066486	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310023.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323179	E-MTAB-1720:OS+NS C	E-MTAB-1720:OS+NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp26 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	OS+NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283473	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-044	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-044	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: sodium chloride || Experimental Factor: dose_2: 1 molar || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR310041	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-044.sanfastq.gz	The GenePool, University of Edinburgh	1330468	67853868	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR310041.sra	2018
ERA237292	ArrayExpress	2016-01-11	2018-05-24T18:09:52Z	ERP003535	E-MTAB-1720	E-MTAB-1720	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-1720	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	ERS323172	E-MTAB-1720:NS C	E-MTAB-1720:NS C	organism: Candida albicans || genotype: ura3::imm434/ura3::imm434 + CIp20 || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NS C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX283433	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-050	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-050	Illumina HiSeq 2000 sequencing; Initial stress responses of Candida albicans to combinations of cationic, oxidative and nitrosative stresses	Experimental Factor: compound_1: DPTA nonoate || Experimental Factor: dose_1: 2.5 millimolar || Experimental Factor: compound_2: n/a || Experimental Factor: dose_2: n/a n/a || Experimental Factor: compound_3: n/a || Experimental Factor: dose_3: n/a n/a	ERR309988	E-MTAB-1720:120314_0166_D0814ACXX_1_SA-PE-050.sanfastq.gz	The GenePool, University of Edinburgh	1827265	93190515	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR309988.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523427	E-MTAB-2822:5H2O2NaCl_60_B	E-MTAB-2822:5H2O2NaCl_60_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2NaCl_60_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533347	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-028	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-028	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 + 1M NaCl, 60 min	ERR574582	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-028.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	23191548	1159577400	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574582.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523447	E-MTAB-2822:5H2O2_30_B	E-MTAB-2822:5H2O2_30_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2_30_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533367	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-039	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-039	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 , 30 min	ERR574621	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-039.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	23416059	1170802950	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574621.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523461	E-MTAB-2822:5H2O2_60_B	E-MTAB-2822:5H2O2_60_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2_60_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533381	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-024	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-024	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 , 60 min	ERR574587	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-024.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	25641757	1282087850	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574587.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523431	E-MTAB-2822:5H2O2NaCl_60_C	E-MTAB-2822:5H2O2NaCl_60_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2NaCl_60_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533351	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-036	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-036	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 + 1M NaCl, 60 min	ERR574600	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-036.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	19393539	969676950	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574600.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523473	E-MTAB-2822:NaCl_30_B	E-MTAB-2822:NaCl_30_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NaCl_30_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533393	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-041	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-041	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 1M NaCl, 30 min	ERR574588	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-041.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	26787637	1339381850	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574588.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523444	E-MTAB-2822:04H2O2NaCl_30_A	E-MTAB-2822:04H2O2NaCl_30_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2NaCl_30_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533364	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-013	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-013	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 + 1M NaCl, 30 min	ERR574576	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-013.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	19001050	950052500	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574576.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523429	E-MTAB-2822:NaCl_10_C	E-MTAB-2822:NaCl_10_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NaCl_10_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533349	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-037	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-037	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 1M NaCl, 10 min	ERR574591	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-037.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	26036862	1301843100	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574591.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523459	E-MTAB-2822:5H2O2NaCl_40_C	E-MTAB-2822:5H2O2NaCl_40_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2NaCl_40_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533379	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-038	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-038	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 + 1M NaCl, 40 min	ERR574586	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-038.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	24106257	1205312850	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574586.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523442	E-MTAB-2822:NoStress_0_C	E-MTAB-2822:NoStress_0_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NoStress_0_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533362	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-029	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-029	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: No stress, 0 min	ERR574633	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-029.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	26453032	1322651600	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574633.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523467	E-MTAB-2822:5H2O2_60_C	E-MTAB-2822:5H2O2_60_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2_60_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533387	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-032	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-032	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 , 60 min	ERR574608	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-032.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	33782754	1689137700	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574608.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523481	E-MTAB-2822:NaCl_30_C	E-MTAB-2822:NaCl_30_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NaCl_30_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533401	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-028	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-028	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 1M NaCl, 30 min	ERR574607	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-028.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	27765817	1388290850	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574607.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523450	E-MTAB-2822:5H2O2NaCl_20_B	E-MTAB-2822:5H2O2NaCl_20_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2NaCl_20_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533370	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-047	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-047	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 + 1M NaCl, 20 min	ERR574627	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-047.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	23017447	1150872350	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574627.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523469	E-MTAB-2822:5H2O2NaCl_10_A	E-MTAB-2822:5H2O2NaCl_10_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2NaCl_10_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533389	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-045	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-045	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 + 1M NaCl, 10 min	ERR574631	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-045.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	28810306	1440515300	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574631.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523451	E-MTAB-2822:5H2O2NaCl_30_C	E-MTAB-2822:5H2O2NaCl_30_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2NaCl_30_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533371	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-034	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-034	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 + 1M NaCl, 30 min	ERR574584	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-034.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	20611361	1030568050	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574584.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523430	E-MTAB-2822:04H2O2NaCl_60_C	E-MTAB-2822:04H2O2NaCl_60_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2NaCl_60_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533350	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-035	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-035	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 + 1M NaCl, 60 min	ERR574590	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-035.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	22312245	1115612250	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574590.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523434	E-MTAB-2822:NaCl_10_B	E-MTAB-2822:NaCl_10_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NaCl_10_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533354	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-040	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-040	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 1M NaCl, 10 min	ERR574580	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-040.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	23114749	1155737450	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574580.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523460	E-MTAB-2822:5H2O2_10_A	E-MTAB-2822:5H2O2_10_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2_10_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533380	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-005	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-005	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 , 10 min	ERR574630	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-005.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	24717710	1235885500	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574630.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523453	E-MTAB-2822:04H2O2_60_A	E-MTAB-2822:04H2O2_60_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2_60_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533373	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-004	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-004	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 , 60 min	ERR574585	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-004.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	28412693	1420634650	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574585.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523425	E-MTAB-2822:04H2O2NaCl_10_B	E-MTAB-2822:04H2O2NaCl_10_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2NaCl_10_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533345	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-026	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-026	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 + 1M NaCl, 10 min	ERR574609	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-026.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	22581241	1129062050	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574609.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523448	E-MTAB-2822:NoStress_0_A	E-MTAB-2822:NoStress_0_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NoStress_0_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533368	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-001	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-001	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: No stress, 0 min	ERR574625	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-001.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	30802956	1540147800	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574625.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523441	E-MTAB-2822:04H2O2NaCl_20_B	E-MTAB-2822:04H2O2NaCl_20_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2NaCl_20_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533361	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-042	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-042	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 + 1M NaCl, 20 min	ERR574620	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-042.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	23514098	1175704900	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574620.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523458	E-MTAB-2822:NoStress_0_B	E-MTAB-2822:NoStress_0_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NoStress_0_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533378	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-021	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-021	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: No stress, 0 min	ERR574575	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-021.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	31417512	1570875600	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574575.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523445	E-MTAB-2822:5H2O2NaCl_40_B	E-MTAB-2822:5H2O2NaCl_40_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2NaCl_40_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533365	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-024	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-024	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 + 1M NaCl, 40 min	ERR574592	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-024.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	29696389	1484819450	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574592.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523436	E-MTAB-2822:04H2O2NaCl_40_A	E-MTAB-2822:04H2O2NaCl_40_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2NaCl_40_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533356	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-014	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-014	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 + 1M NaCl, 40 min	ERR574619	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-014.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	19171622	958581100	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574619.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523456	E-MTAB-2822:NaCl_60_C	E-MTAB-2822:NaCl_60_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NaCl_60_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533376	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-033	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-033	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 1M NaCl, 60 min	ERR574617	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-033.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	24723959	1236197950	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574617.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523443	E-MTAB-2822:04H2O2NaCl_40_C	E-MTAB-2822:04H2O2NaCl_40_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2NaCl_40_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533363	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-031	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-031	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 + 1M NaCl, 40 min	ERR574602	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-031.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	24838486	1241924300	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574602.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523452	E-MTAB-2822:04H2O2_10_B	E-MTAB-2822:04H2O2_10_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2_10_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533372	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-022	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-022	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 , 10 min	ERR574623	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-022.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	22645947	1132297350	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574623.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523454	E-MTAB-2822:04H2O2NaCl_10_C	E-MTAB-2822:04H2O2NaCl_10_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2NaCl_10_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533374	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-034	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-034	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 + 1M NaCl, 10 min	ERR574616	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-034.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	21959154	1097957700	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574616.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523446	E-MTAB-2822:04H2O2NaCl_20_C	E-MTAB-2822:04H2O2NaCl_20_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2NaCl_20_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533366	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-029	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-029	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 + 1M NaCl, 20 min	ERR574599	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-029.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	22836948	1141847400	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574599.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523482	E-MTAB-2822:5H2O2NaCl_40_A	E-MTAB-2822:5H2O2NaCl_40_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2NaCl_40_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533402	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-019	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-019	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 + 1M NaCl, 40 min	ERR574614	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-019.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	29908753	1495437650	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574614.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523440	E-MTAB-2822:04H2O2NaCl_10_A	E-MTAB-2822:04H2O2NaCl_10_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2NaCl_10_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533360	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-011	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-011	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 + 1M NaCl, 10 min	ERR574593	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-011.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	17932814	896640700	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574593.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523465	E-MTAB-2822:04H2O2_10_A	E-MTAB-2822:04H2O2_10_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2_10_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533385	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-002	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-002	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 , 10 min	ERR574578	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-002.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	16379420	818971000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574578.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523455	E-MTAB-2822:5H2O2_30_A	E-MTAB-2822:5H2O2_30_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2_30_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533375	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-006	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-006	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 , 30 min	ERR574613	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-006.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	16614527	830726350	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574613.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523472	E-MTAB-2822:5H2O2NaCl_20_C	E-MTAB-2822:5H2O2NaCl_20_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2NaCl_20_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533392	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-033	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-033	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 + 1M NaCl, 20 min	ERR574574	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-033.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	20860408	1043020400	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574574.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523426	E-MTAB-2822:5H2O2_10_B	E-MTAB-2822:5H2O2_10_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2_10_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533346	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-038	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-038	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 , 10 min	ERR574610	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-038.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	27878957	1393947850	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574610.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523474	E-MTAB-2822:04H2O2NaCl_30_B	E-MTAB-2822:04H2O2NaCl_30_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2NaCl_30_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533394	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-043	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-043	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 + 1M NaCl, 30 min	ERR574629	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-043.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	28755392	1437769600	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574629.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523479	E-MTAB-2822:04H2O2_60_C	E-MTAB-2822:04H2O2_60_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2_60_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533399	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-031	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-031	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 , 60 min	ERR574624	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-031.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	30713754	1535687700	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574624.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523471	E-MTAB-2822:NaCl_60_B	E-MTAB-2822:NaCl_60_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NaCl_60_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533391	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-025	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-025	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 1M NaCl, 60 min	ERR574598	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-025.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	25216307	1260815350	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574598.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523457	E-MTAB-2822:5H2O2NaCl_30_A	E-MTAB-2822:5H2O2NaCl_30_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2NaCl_30_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533377	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-018	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-018	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 + 1M NaCl, 30 min	ERR574581	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-018.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	22187457	1109372850	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574581.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523480	E-MTAB-2822:04H2O2_60_B	E-MTAB-2822:04H2O2_60_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2_60_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533400	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-023	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-023	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 , 60 min	ERR574628	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-023.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	20647802	1032390100	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574628.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523433	E-MTAB-2822:5H2O2_10_C	E-MTAB-2822:5H2O2_10_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2_10_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533353	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-025	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-025	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 , 10 min	ERR574596	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-025.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	24520333	1226016650	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574596.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523437	E-MTAB-2822:5H2O2NaCl_10_B	E-MTAB-2822:5H2O2NaCl_10_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2NaCl_10_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533357	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-046	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-046	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 + 1M NaCl, 10 min	ERR574594	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-046.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	23602798	1180139900	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574594.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523475	E-MTAB-2822:04H2O2NaCl_60_B	E-MTAB-2822:04H2O2NaCl_60_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2NaCl_60_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533395	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-027	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-027	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 + 1M NaCl, 60 min	ERR574604	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-027.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	25313811	1265690550	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574604.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523478	E-MTAB-2822:5H2O2NaCl_10_C	E-MTAB-2822:5H2O2NaCl_10_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2NaCl_10_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533398	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-032	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-032	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 + 1M NaCl, 10 min	ERR574615	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-032.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	23208814	1160440700	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574615.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523462	E-MTAB-2822:NaCl_60_A	E-MTAB-2822:NaCl_60_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NaCl_60_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533382	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-010	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-010	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 1M NaCl, 60 min	ERR574622	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-010.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	23563886	1178194300	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574622.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523439	E-MTAB-2822:04H2O2_30_C	E-MTAB-2822:04H2O2_30_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2_30_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533359	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-050	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-050	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 , 30 min	ERR574606	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-050.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	20059431	1002971550	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574606.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523449	E-MTAB-2822:5H2O2_60_A	E-MTAB-2822:5H2O2_60_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2_60_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533369	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-020	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-020	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 , 60 min	ERR574589	E-MTAB-2822:130722_0315_D24BWACXX_6_SA-PE-020.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	20030639	1001531950	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574589.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523432	E-MTAB-2822:04H2O2NaCl_40_B	E-MTAB-2822:04H2O2NaCl_40_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2NaCl_40_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533352	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-044	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-044	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 + 1M NaCl, 40 min	ERR574579	E-MTAB-2822:130722_0315_D24BWACXX_5_SA-PE-044.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	28111795	1405589750	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574579.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523428	E-MTAB-2822:04H2O2_30_A	E-MTAB-2822:04H2O2_30_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2_30_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533348	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-003	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-003	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 , 30 min	ERR574605	E-MTAB-2822:130726_0316_D2BEMACXX_1_SA-PE-003.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	28227925	1411396250	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574605.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523435	E-MTAB-2822:04H2O2_30_B	E-MTAB-2822:04H2O2_30_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2_30_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533355	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-037	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-037	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 , 30 min	ERR574626	E-MTAB-2822:130722_0315_D24BWACXX_3_SA-PE-037.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	27089068	1354453400	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574626.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523424	E-MTAB-2822:04H2O2NaCl_60_A	E-MTAB-2822:04H2O2NaCl_60_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2NaCl_60_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533344	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-015	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-015	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 + 1M NaCl, 60 min	ERR574601	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-015.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	21721063	1086053150	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574601.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523463	E-MTAB-2822:04H2O2_10_C	E-MTAB-2822:04H2O2_10_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2_10_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533383	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-030	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-030	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 , 10 min	ERR574603	E-MTAB-2822:130722_0315_D24BWACXX_2_SA-PE-030.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	19734875	986743750	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574603.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523468	E-MTAB-2822:04H2O2NaCl_20_A	E-MTAB-2822:04H2O2NaCl_20_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2NaCl_20_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533388	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-012	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-012	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 + 1M NaCl, 20 min	ERR574632	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-012.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	24338351	1216917550	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574632.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523464	E-MTAB-2822:5H2O2NaCl_30_B	E-MTAB-2822:5H2O2NaCl_30_B	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2NaCl_30_B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533384	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-021	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-021	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 + 1M NaCl, 30 min	ERR574597	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-021.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	25594085	1279704250	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574597.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523483	E-MTAB-2822:5H2O2_30_C	E-MTAB-2822:5H2O2_30_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2_30_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533403	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-026	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-026	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 , 30 min	ERR574618	E-MTAB-2822:130722_0315_D24BWACXX_7_SA-PE-026.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	28869865	1443493250	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574618.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523477	E-MTAB-2822:5H2O2NaCl_20_A	E-MTAB-2822:5H2O2NaCl_20_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2NaCl_20_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533397	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-017	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-017	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 + 1M NaCl, 20 min	ERR574577	E-MTAB-2822:130726_0316_D2BEMACXX_3_SA-PE-017.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	21626063	1081303150	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574577.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523476	E-MTAB-2822:NaCl_30_A	E-MTAB-2822:NaCl_30_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NaCl_30_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533396	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-009	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-009	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 1M NaCl, 30 min	ERR574611	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-009.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	31314243	1565712150	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574611.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523438	E-MTAB-2822:04H2O2NaCl_30_C	E-MTAB-2822:04H2O2NaCl_30_C	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	04H2O2NaCl_30_C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533358	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-030	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-030	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 0.4 mM H2O2 + 1M NaCl, 30 min	ERR574595	E-MTAB-2822:130722_0315_D24BWACXX_4_SA-PE-030.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	21010454	1050522700	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574595.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523466	E-MTAB-2822:5H2O2NaCl_60_A	E-MTAB-2822:5H2O2NaCl_60_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	5H2O2NaCl_60_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533386	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-020	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-020	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 5 mM H2O2 + 1M NaCl, 60 min	ERR574612	E-MTAB-2822:130722_0315_D24BWACXX_1_SA-PE-020.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	26282599	1314129950	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574612.sra	2018
ERA345338	NA	2016-06-28	2018-05-24T18:09:52Z	ERP006610	E-MTAB-2822	E-MTAB-2822	Stress responses of Candida albicans	Transcriptome Analysis	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	Stress responses of Candida albicans	A study was carried out to characterise the global transcriptional response of Candida albicans to various environmental stresses, alone and in combinations.	ArrayExpress: E-MTAB-2822	Protocols: Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	Stress responses of Candida albicans	ERS523470	E-MTAB-2822:NaCl_10_A	E-MTAB-2822:NaCl_10_A	organism: Candida albicans || strain: CAI4-CIp10 || specimen with known storage state: frozen specimen || genotype: ura3::imm434/ura3::imm434 + CIp10	5476	CAI4	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NaCl_10_A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans (strain CAI4-CIp10) was grown in YPD-T (Tris buffered YPD: 2% w/v glucose, 2% w/v mycological peptone, 1% w/v yeast extract, 100 mM Tris.HCl, pH 7.4) to mid-exponential phase Cultures were split and exposed to stresses in fresh medium at an OD600 of 0.2. Biological triplicate cultures were processed After 10 min cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). An unstressed sample (timepoint 0 min) was used as control. RNA was DNase treated using Ambion Turbo DNAfree kit before being sent to GenePool. Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	ERX533390	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-008	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-008	Illumina HiSeq 2000 sequencing; Stress responses of Candida albicans	Experimental Factor: growth condition: 1M NaCl, 10 min	ERR574583	E-MTAB-2822:130726_0316_D2BEMACXX_2_SA-PE-008.sanfastq.gz	The GenePool, University of Edinburgh, Edinburgh, UK	26537926	1326896300	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR574583.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979353	E-MTAB-4075:SN95C	E-MTAB-4075:SN95C	isolate: not applicable || organism: Candida albicans || strain: SN95 || growth condition: control || stimulus:  || time: :	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	SN95C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222439	E-MTAB-4075:SN95C	E-MTAB-4075:SN95C	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: SN95: strain || Experimental Factor: control: growth condition	ERR1143629	E-MTAB-4075:SN95C	The GenePool, University of Edinburgh, Edinburgh, UK	22528267	1126413350	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143629.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979364	E-MTAB-4075:SN95doxHS60B	E-MTAB-4075:SN95doxHS60B	isolate: not applicable || organism: Candida albicans || strain: SN95 || growth condition: doxycycline || stimulus: heat shock || time: 60: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	SN95doxHS60B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222450	E-MTAB-4075:SN95doxHS60B	E-MTAB-4075:SN95doxHS60B	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: SN95: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 60: time	ERR1143640	E-MTAB-4075:SN95doxHS60B	The GenePool, University of Edinburgh, Edinburgh, UK	22713409	1135670450	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143640.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979363	E-MTAB-4075:SN95doxHS60A	E-MTAB-4075:SN95doxHS60A	isolate: not applicable || organism: Candida albicans || strain: SN95 || growth condition: doxycycline || stimulus: heat shock || time: 60: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	SN95doxHS60A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222449	E-MTAB-4075:SN95doxHS60A	E-MTAB-4075:SN95doxHS60A	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: SN95: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 60: time	ERR1143639	E-MTAB-4075:SN95doxHS60A	The GenePool, University of Edinburgh, Edinburgh, UK	21902320	1095116000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143639.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979354	E-MTAB-4075:SN95doxA	E-MTAB-4075:SN95doxA	isolate: not applicable || organism: Candida albicans || strain: SN95 || growth condition: doxycycline || stimulus:  || time: :	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	SN95doxA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222440	E-MTAB-4075:SN95doxA	E-MTAB-4075:SN95doxA	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: SN95: strain || Experimental Factor: doxycycline: growth condition	ERR1143630	E-MTAB-4075:SN95doxA	The GenePool, University of Edinburgh, Edinburgh, UK	23139551	1156977550	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143630.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979374	E-MTAB-4075:tet90doxHS10C	E-MTAB-4075:tet90doxHS10C	isolate: not applicable || organism: Candida albicans || strain: CalC1441 || growth condition: doxycycline || stimulus: heat shock || time: 10: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	tet90doxHS10C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222460	E-MTAB-4075:tet90doxHS10C	E-MTAB-4075:tet90doxHS10C	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: CalC1441: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 10: time	ERR1143650	E-MTAB-4075:tet90doxHS10C	The GenePool, University of Edinburgh, Edinburgh, UK	23831337	1191566850	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143650.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979361	E-MTAB-4075:SN95doxHS30B	E-MTAB-4075:SN95doxHS30B	isolate: not applicable || organism: Candida albicans || strain: SN95 || growth condition: doxycycline || stimulus: heat shock || time: 30: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	SN95doxHS30B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222447	E-MTAB-4075:SN95doxHS30B	E-MTAB-4075:SN95doxHS30B	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: SN95: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 30: time	ERR1143637	E-MTAB-4075:SN95doxHS30B	The GenePool, University of Edinburgh, Edinburgh, UK	24689027	1234451350	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143637.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979367	E-MTAB-4075:tet90B	E-MTAB-4075:tet90B	isolate: not applicable || organism: Candida albicans || strain: CalC1441 || growth condition: control || stimulus:  || time: :	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	tet90B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222453	E-MTAB-4075:tet90B	E-MTAB-4075:tet90B	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: CalC1441: strain || Experimental Factor: control: growth condition	ERR1143643	E-MTAB-4075:tet90B	The GenePool, University of Edinburgh, Edinburgh, UK	21127478	1056373900	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143643.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979355	E-MTAB-4075:SN95doxB	E-MTAB-4075:SN95doxB	isolate: not applicable || organism: Candida albicans || strain: SN95 || growth condition: doxycycline || stimulus:  || time: :	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	SN95doxB	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222441	E-MTAB-4075:SN95doxB	E-MTAB-4075:SN95doxB	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: SN95: strain || Experimental Factor: doxycycline: growth condition	ERR1143631	E-MTAB-4075:SN95doxB	The GenePool, University of Edinburgh, Edinburgh, UK	20597523	1029876150	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143631.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979360	E-MTAB-4075:SN95doxHS30A	E-MTAB-4075:SN95doxHS30A	isolate: not applicable || organism: Candida albicans || strain: SN95 || growth condition: doxycycline || stimulus: heat shock || time: 30: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	SN95doxHS30A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222446	E-MTAB-4075:SN95doxHS30A	E-MTAB-4075:SN95doxHS30A	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: SN95: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 30: time	ERR1143636	E-MTAB-4075:SN95doxHS30A	The GenePool, University of Edinburgh, Edinburgh, UK	21472141	1073607050	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143636.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979377	E-MTAB-4075:tet90doxHS30C	E-MTAB-4075:tet90doxHS30C	isolate: not applicable || organism: Candida albicans || strain: CalC1441 || growth condition: doxycycline || stimulus: heat shock || time: 30: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	tet90doxHS30C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222463	E-MTAB-4075:tet90doxHS30C	E-MTAB-4075:tet90doxHS30C	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: CalC1441: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 30: time	ERR1143653	E-MTAB-4075:tet90doxHS30C	The GenePool, University of Edinburgh, Edinburgh, UK	24701372	1235068600	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143653.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979352	E-MTAB-4075:SN95B	E-MTAB-4075:SN95B	isolate: not applicable || organism: Candida albicans || strain: SN95 || growth condition: control || stimulus:  || time: :	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	SN95B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222438	E-MTAB-4075:SN95B	E-MTAB-4075:SN95B	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: SN95: strain || Experimental Factor: control: growth condition	ERR1143628	E-MTAB-4075:SN95B	The GenePool, University of Edinburgh, Edinburgh, UK	16788243	839412150	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143628.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979373	E-MTAB-4075:tet90doxHS10B	E-MTAB-4075:tet90doxHS10B	isolate: not applicable || organism: Candida albicans || strain: CalC1441 || growth condition: doxycycline || stimulus: heat shock || time: 10: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	tet90doxHS10B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222459	E-MTAB-4075:tet90doxHS10B	E-MTAB-4075:tet90doxHS10B	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: CalC1441: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 10: time	ERR1143649	E-MTAB-4075:tet90doxHS10B	The GenePool, University of Edinburgh, Edinburgh, UK	24185018	1209250900	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143649.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979366	E-MTAB-4075:tet90A	E-MTAB-4075:tet90A	isolate: not applicable || organism: Candida albicans || strain: CalC1441 || growth condition: control || stimulus:  || time: :	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	tet90A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222452	E-MTAB-4075:tet90A	E-MTAB-4075:tet90A	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: CalC1441: strain || Experimental Factor: control: growth condition	ERR1143642	E-MTAB-4075:tet90A	The GenePool, University of Edinburgh, Edinburgh, UK	23036529	1151826450	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143642.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979356	E-MTAB-4075:SN95doxC	E-MTAB-4075:SN95doxC	isolate: not applicable || organism: Candida albicans || strain: SN95 || growth condition: doxycycline || stimulus:  || time: :	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	SN95doxC	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222442	E-MTAB-4075:SN95doxC	E-MTAB-4075:SN95doxC	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: SN95: strain || Experimental Factor: doxycycline: growth condition	ERR1143632	E-MTAB-4075:SN95doxC	The GenePool, University of Edinburgh, Edinburgh, UK	22616435	1130821750	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143632.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979375	E-MTAB-4075:tet90doxHS30A	E-MTAB-4075:tet90doxHS30A	isolate: not applicable || organism: Candida albicans || strain: CalC1441 || growth condition: doxycycline || stimulus: heat shock || time: 30: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	tet90doxHS30A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222461	E-MTAB-4075:tet90doxHS30A	E-MTAB-4075:tet90doxHS30A	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: CalC1441: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 30: time	ERR1143651	E-MTAB-4075:tet90doxHS30A	The GenePool, University of Edinburgh, Edinburgh, UK	24515223	1225761150	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143651.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979362	E-MTAB-4075:SN95doxHS30C	E-MTAB-4075:SN95doxHS30C	isolate: not applicable || organism: Candida albicans || strain: SN95 || growth condition: doxycycline || stimulus: heat shock || time: 30: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	SN95doxHS30C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222448	E-MTAB-4075:SN95doxHS30C	E-MTAB-4075:SN95doxHS30C	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: SN95: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 30: time	ERR1143638	E-MTAB-4075:SN95doxHS30C	The GenePool, University of Edinburgh, Edinburgh, UK	21595902	1079795100	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143638.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979351	E-MTAB-4075:SN95A	E-MTAB-4075:SN95A	isolate: not applicable || organism: Candida albicans || strain: SN95 || growth condition: control || stimulus:  || time: :	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	SN95A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222437	E-MTAB-4075:SN95A	E-MTAB-4075:SN95A	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: SN95: strain || Experimental Factor: control: growth condition	ERR1143627	E-MTAB-4075:SN95A	The GenePool, University of Edinburgh, Edinburgh, UK	22506299	1125314950	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143627.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979357	E-MTAB-4075:SN95doxHS10A	E-MTAB-4075:SN95doxHS10A	isolate: not applicable || organism: Candida albicans || strain: SN95 || growth condition: doxycycline || stimulus: heat shock || time: 10: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	SN95doxHS10A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222443	E-MTAB-4075:SN95doxHS10A	E-MTAB-4075:SN95doxHS10A	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: SN95: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 10: time	ERR1143633	E-MTAB-4075:SN95doxHS10A	The GenePool, University of Edinburgh, Edinburgh, UK	24776813	1238840650	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143633.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979358	E-MTAB-4075:SN95doxHS10B	E-MTAB-4075:SN95doxHS10B	isolate: not applicable || organism: Candida albicans || strain: SN95 || growth condition: doxycycline || stimulus: heat shock || time: 10: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	SN95doxHS10B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222444	E-MTAB-4075:SN95doxHS10B	E-MTAB-4075:SN95doxHS10B	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: SN95: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 10: time	ERR1143634	E-MTAB-4075:SN95doxHS10B	The GenePool, University of Edinburgh, Edinburgh, UK	26361080	1318054000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143634.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979365	E-MTAB-4075:SN95doxHS60C	E-MTAB-4075:SN95doxHS60C	isolate: not applicable || organism: Candida albicans || strain: SN95 || growth condition: doxycycline || stimulus: heat shock || time: 60: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	SN95doxHS60C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222451	E-MTAB-4075:SN95doxHS60C	E-MTAB-4075:SN95doxHS60C	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: SN95: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 60: time	ERR1143641	E-MTAB-4075:SN95doxHS60C	The GenePool, University of Edinburgh, Edinburgh, UK	22505185	1125259250	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143641.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979379	E-MTAB-4075:tet90doxHS60B	E-MTAB-4075:tet90doxHS60B	isolate: not applicable || organism: Candida albicans || strain: CalC1441 || growth condition: doxycycline || stimulus: heat shock || time: 60: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	tet90doxHS60B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222465	E-MTAB-4075:tet90doxHS60B	E-MTAB-4075:tet90doxHS60B	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: CalC1441: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 60: time	ERR1143655	E-MTAB-4075:tet90doxHS60B	The GenePool, University of Edinburgh, Edinburgh, UK	20194809	1009740450	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143655.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979359	E-MTAB-4075:SN95doxHS10C	E-MTAB-4075:SN95doxHS10C	isolate: not applicable || organism: Candida albicans || strain: SN95 || growth condition: doxycycline || stimulus: heat shock || time: 10: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	SN95doxHS10C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222445	E-MTAB-4075:SN95doxHS10C	E-MTAB-4075:SN95doxHS10C	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: SN95: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 10: time	ERR1143635	E-MTAB-4075:SN95doxHS10C	The GenePool, University of Edinburgh, Edinburgh, UK	22746230	1137311500	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143635.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979380	E-MTAB-4075:tet90doxHS60C	E-MTAB-4075:tet90doxHS60C	isolate: not applicable || organism: Candida albicans || strain: CalC1441 || growth condition: doxycycline || stimulus: heat shock || time: 60: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	tet90doxHS60C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222466	E-MTAB-4075:tet90doxHS60C	E-MTAB-4075:tet90doxHS60C	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: CalC1441: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 60: time	ERR1143656	E-MTAB-4075:tet90doxHS60C	The GenePool, University of Edinburgh, Edinburgh, UK	22389009	1119450450	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143656.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979372	E-MTAB-4075:tet90doxHS10A	E-MTAB-4075:tet90doxHS10A	isolate: not applicable || organism: Candida albicans || strain: CalC1441 || growth condition: doxycycline || stimulus: heat shock || time: 10: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	tet90doxHS10A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222458	E-MTAB-4075:tet90doxHS10A	E-MTAB-4075:tet90doxHS10A	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: CalC1441: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 10: time	ERR1143648	E-MTAB-4075:tet90doxHS10A	The GenePool, University of Edinburgh, Edinburgh, UK	21103650	1055182500	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143648.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979371	E-MTAB-4075:tet90doxC	E-MTAB-4075:tet90doxC	isolate: not applicable || organism: Candida albicans || strain: CalC1441 || growth condition: doxycycline || stimulus:  || time: :	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	tet90doxC	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222457	E-MTAB-4075:tet90doxC	E-MTAB-4075:tet90doxC	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: CalC1441: strain || Experimental Factor: doxycycline: growth condition	ERR1143647	E-MTAB-4075:tet90doxC	The GenePool, University of Edinburgh, Edinburgh, UK	22833160	1141658000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143647.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979369	E-MTAB-4075:tet90doxA	E-MTAB-4075:tet90doxA	isolate: not applicable || organism: Candida albicans || strain: CalC1441 || growth condition: doxycycline || stimulus:  || time: :	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	tet90doxA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222455	E-MTAB-4075:tet90doxA	E-MTAB-4075:tet90doxA	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: CalC1441: strain || Experimental Factor: doxycycline: growth condition	ERR1143645	E-MTAB-4075:tet90doxA	The GenePool, University of Edinburgh, Edinburgh, UK	21668491	1083424550	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143645.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979376	E-MTAB-4075:tet90doxHS30B	E-MTAB-4075:tet90doxHS30B	isolate: not applicable || organism: Candida albicans || strain: CalC1441 || growth condition: doxycycline || stimulus: heat shock || time: 30: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	tet90doxHS30B	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222462	E-MTAB-4075:tet90doxHS30B	E-MTAB-4075:tet90doxHS30B	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: CalC1441: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 30: time	ERR1143652	E-MTAB-4075:tet90doxHS30B	The GenePool, University of Edinburgh, Edinburgh, UK	21194869	1059743450	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143652.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979370	E-MTAB-4075:tet90doxB	E-MTAB-4075:tet90doxB	isolate: not applicable || organism: Candida albicans || strain: CalC1441 || growth condition: doxycycline || stimulus:  || time: :	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	tet90doxB	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222456	E-MTAB-4075:tet90doxB	E-MTAB-4075:tet90doxB	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: CalC1441: strain || Experimental Factor: doxycycline: growth condition	ERR1143646	E-MTAB-4075:tet90doxB	The GenePool, University of Edinburgh, Edinburgh, UK	24007381	1200369050	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143646.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979368	E-MTAB-4075:tet90C	E-MTAB-4075:tet90C	isolate: not applicable || organism: Candida albicans || strain: CalC1441 || growth condition: control || stimulus:  || time: :	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	tet90C	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222454	E-MTAB-4075:tet90C	E-MTAB-4075:tet90C	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: CalC1441: strain || Experimental Factor: control: growth condition	ERR1143644	E-MTAB-4075:tet90C	The GenePool, University of Edinburgh, Edinburgh, UK	23633415	1181670750	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143644.sra	2018
ERA535781	European Nucleotide Archive	2016-05-18	2018-05-24T18:09:52Z	ERP013259	E-MTAB-4075	E-MTAB-4075	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Transcriptome Analysis	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	NA	aThese experiments address the effects of depleting Hsp90 upon the transcriptome of the major fungal pathogen, Candida albicans, during the heat shock response.  The data show that key virulence factors are regulated in response to heat shock, and that Hsp90 exerts major effects on the heat shock transcriptome.a	ArrayExpress: E-MTAB-4075	Protocols: Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	ERS979378	E-MTAB-4075:tet90doxHS60A	E-MTAB-4075:tet90doxHS60A	isolate: not applicable || organism: Candida albicans || strain: CalC1441 || growth condition: doxycycline || stimulus: heat shock || time: 60: minute	5476	SN95	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	tet90doxHS60A	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Candida albicans cells (wild type strain SN95 [HSP90/HSP90], and mutant strain CalC1441 [tetO-HSP90/hsp90]) were grown in YPD (2% yeast extract, 2% bactopeptone, 2% glucose) to mid-exponential phase. Cultures were grown either in the absence or presence of 20 g/ml doxycycline.  Cells were then exposed to a 30 C-42 C heat shock, and RNA extracted 10, 30 and 60 minutes post-heat shock.  Untreated controls were included, for which RNA was extracted at time zero before heat shock. Biological triplicate cultures were processed. Cells were flash frozen in liquid nitrogen and RNA was extracted using Qiazol (phenol/chloroform  method). RNA was DNase treated using Ambion Turbo DNAfree kit before being sent for library preparation and sequencing Libraries were prepared using standard Illumina RNAseq library preparation kit.	FALSE	NA	ERX1222464	E-MTAB-4075:tet90doxHS60A	E-MTAB-4075:tet90doxHS60A	Illumina HiSeq 2000 sequencing; The impact of Hsp90 upon the Candida albicans transcriptome during heat shock	Experimental Factor: CalC1441: strain || Experimental Factor: doxycycline: growth condition || Experimental Factor: heat shock: stimulus || Experimental Factor: 60: time	ERR1143654	E-MTAB-4075:tet90doxHS60A	The GenePool, University of Edinburgh, Edinburgh, UK	25308804	1265440200	/nfs/ex7/work/momeara/ca_coexp/sra_80601/ERR1143654.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745916	GSM1547908	NA	source_name: Yeast cell culture, Lactic acid treatment || strain: SC5314 || treatment: Lactic acid (IC50) || ph: 5.5 || time point: T2 (28h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761382	GSM1547908	GSM1547908	GSM1547908: RYY022; Candida albicans; RNA-Seq	GEO Accession: GSM1547908	SRR1654857	GSM1547908_r1	NA	12133078	1237573956	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654857.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464809	GSM1197163	NA	source_name: Yeast cell culture, Butyric acid treatment || strain: SC5314 || treatment: Butyric acid (IC50) || ph: 5.5 || time point: T1 (4h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328675	GSM1197163	GSM1197163	GSM1197163: B1D; Candida albicans; RNA-Seq	GEO Accession: GSM1197163	SRR944252	GSM1197163_r1	NA	14347500	1463445000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944252.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745918	GSM1547910	NA	source_name: Yeast cell culture, Butyric acid treatment || strain: SC5314 || treatment: Butyric acid (IC50) || ph: 5.5 || time point: T3 (52h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761384	GSM1547910	GSM1547910	GSM1547910: RYY024; Candida albicans; RNA-Seq	GEO Accession: GSM1547910	SRR1654859	GSM1547910_r1	NA	11927046	1216558692	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654859.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464814	GSM1197168	NA	source_name: Yeast cell culture, Butyric acid treatment || strain: SC5314 || treatment: Butyric acid (IC50) || ph: 5.5 || time point: T1 (4h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328680	GSM1197168	GSM1197168	GSM1197168: B1F; Candida albicans; RNA-Seq	GEO Accession: GSM1197168	SRR944257	GSM1197168_r1	NA	11970782	1221019764	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944257.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745906	GSM1547898	NA	source_name: Yeast cell culture, Acetic acid treatment || strain: SC5314 || treatment: Acetic acid (IC15) || ph: 5.5 || time point: T3 (52h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761372	GSM1547898	GSM1547898	GSM1547898: RYY009; Candida albicans; RNA-Seq	GEO Accession: GSM1547898	SRR1654847	GSM1547898_r1	NA	11576932	1180847064	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654847.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464821	GSM1197175	NA	source_name: Yeast cell culture, untreated control || strain: SC5314 || treatment: None || ph: 5.8 || time point: T4 (76h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328687	GSM1197175	GSM1197175	GSM1197175: C4F; Candida albicans; RNA-Seq	GEO Accession: GSM1197175	SRR944264	GSM1197175_r1	NA	14374779	1466227458	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944264.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464817	GSM1197171	NA	source_name: Yeast cell culture, Propionic acid treatment || strain: SC5314 || treatment: Propionic acid (IC50) || ph: 5.5 || time point: T1 (4h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328683	GSM1197171	GSM1197171	GSM1197171: P1F; Candida albicans; RNA-Seq	GEO Accession: GSM1197171	SRR944260	GSM1197171_r1	NA	12724495	1297898490	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944260.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745931	GSM1547924	NA	source_name: Yeast cell culture, Propionic acid treatment || strain: SC5314 || treatment: Propionic acid (IC50) || ph: 5.5 || time point: T2 (28h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761398	GSM1547924	GSM1547924	GSM1547924: RYY053; Candida albicans; RNA-Seq	GEO Accession: GSM1547924	SRR1654873	GSM1547924_r1	NA	13293132	1355899464	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654873.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745920	GSM1547912	NA	source_name: Yeast cell culture, pH control || strain: SC5314 || treatment: HCl || ph: 5.5 || time point: T3 (52h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761386	GSM1547912	GSM1547912	GSM1547912: RYY029; Candida albicans; RNA-Seq	GEO Accession: GSM1547912	SRR1654861	GSM1547912_r1	NA	14435237	1472394174	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654861.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745911	GSM1547902	NA	source_name: Yeast cell culture, untreated control || strain: SC5314 || treatment: None || ph: 5.8 || time point: T3 (52h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761376	GSM1547902	GSM1547902	GSM1547902: RYY016; Candida albicans; RNA-Seq	GEO Accession: GSM1547902	SRR1654851	GSM1547902_r1	NA	15385721	1569343542	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654851.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745910	GSM1547901	NA	source_name: Yeast cell culture, Butyric acid treatment || strain: SC5314 || treatment: Butyric acid (IC50) || ph: 5.5 || time point: T2 (28h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761375	GSM1547901	GSM1547901	GSM1547901: RYY015; Candida albicans; RNA-Seq	GEO Accession: GSM1547901	SRR1654850	GSM1547901_r1	NA	14037931	1431868962	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654850.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464782	GSM1197136	NA	source_name: Yeast cell culture, Butyric acid treatment || strain: SC5314 || treatment: Butyric acid (IC50) || ph: 5.5 || time point: T4 (76h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328648	GSM1197136	GSM1197136	GSM1197136: B4B; Candida albicans; RNA-Seq	GEO Accession: GSM1197136	SRR944225	GSM1197136_r1	NA	13165358	1342866516	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944225.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464795	GSM1197149	NA	source_name: Yeast cell culture, untreated control || strain: SC5314 || treatment: None || ph: 5.8 || time point: T4 (76h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328661	GSM1197149	GSM1197149	GSM1197149: C4C; Candida albicans; RNA-Seq	GEO Accession: GSM1197149	SRR944238	GSM1197149_r1	NA	13976378	1425590556	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944238.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464818	GSM1197172	NA	source_name: Yeast cell culture, pH control || strain: SC5314 || treatment: HCl || ph: 5.5 || time point: T4 (76h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328684	GSM1197172	GSM1197172	GSM1197172: H4F; Candida albicans; RNA-Seq	GEO Accession: GSM1197172	SRR944261	GSM1197172_r1	NA	13511986	1378222572	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944261.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464812	GSM1197166	NA	source_name: Yeast cell culture, pH control || strain: SC5314 || treatment: HCl || ph: 5.5 || time point: T1 (4h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328678	GSM1197166	GSM1197166	GSM1197166: H1F; Candida albicans; RNA-Seq	GEO Accession: GSM1197166	SRR944255	GSM1197166_r1	NA	13502129	1377217158	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944255.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464781	GSM1197135	NA	source_name: Yeast cell culture, Acetic acid treatment || strain: SC5314 || treatment: Acetic acid (IC15) || ph: 5.5 || time point: T1 (4h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328647	GSM1197135	GSM1197135	GSM1197135: A1B; Candida albicans; RNA-Seq	GEO Accession: GSM1197135	SRR944224	GSM1197135_r1	NA	11205966	1143008532	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944224.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464805	GSM1197158	NA	source_name: Yeast cell culture, Lactic acid treatment || strain: SC5314 || treatment: Lactic acid (IC50) || ph: 5.5 || time point: T1 (4h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328670	GSM1197158	GSM1197158	GSM1197158: L1D; Candida albicans; RNA-Seq	GEO Accession: GSM1197158	SRR944247	GSM1197158_r1	NA	15441871	1575070842	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944247.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464798	GSM1197152	NA	source_name: Yeast cell culture, pH control || strain: SC5314 || treatment: HCl || ph: 5.5 || time point: T1 (4h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328664	GSM1197152	GSM1197152	GSM1197152: H1C; Candida albicans; RNA-Seq	GEO Accession: GSM1197152	SRR944241	GSM1197152_r1	NA	13922468	1420091736	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944241.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464803	GSM1197157	NA	source_name: Yeast cell culture, Acetic acid treatment || strain: SC5314 || treatment: Acetic acid (IC15) || ph: 5.5 || time point: T4 (76h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328669	GSM1197157	GSM1197157	GSM1197157: A4D; Candida albicans; RNA-Seq	GEO Accession: GSM1197157	SRR944246	GSM1197157_r1	NA	11936521	1217525142	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944246.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464816	GSM1197170	NA	source_name: Yeast cell culture, Acetic acid treatment || strain: SC5314 || treatment: Acetic acid (IC15) || ph: 5.5 || time point: T1 (4h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328682	GSM1197170	GSM1197170	GSM1197170: A1F; Candida albicans; RNA-Seq	GEO Accession: GSM1197170	SRR944259	GSM1197170_r1	NA	12924539	1318302978	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944259.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464820	GSM1197174	NA	source_name: Yeast cell culture, untreated control || strain: SC5314 || treatment: None || ph: 5.8 || time point: T1 (4h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328686	GSM1197174	GSM1197174	GSM1197174: C1F; Candida albicans; RNA-Seq	GEO Accession: GSM1197174	SRR944263	GSM1197174_r1	NA	12351747	1259878194	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944263.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745912	GSM1547904	NA	source_name: Yeast cell culture, pH control || strain: SC5314 || treatment: HCl || ph: 5.5 || time point: T3 (52h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761378	GSM1547904	GSM1547904	GSM1547904: RYY018; Candida albicans; RNA-Seq	GEO Accession: GSM1547904	SRR1654853	GSM1547904_r1	NA	14528634	1481920668	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654853.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745922	GSM1547914	NA	source_name: Yeast cell culture, Butyric acid treatment || strain: SC5314 || treatment: Butyric acid (IC50) || ph: 5.5 || time point: T3 (52h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761388	GSM1547914	GSM1547914	GSM1547914: RYY032; Candida albicans; RNA-Seq	GEO Accession: GSM1547914	SRR1654863	GSM1547914_r1	NA	11796241	1203216582	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654863.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464800	GSM1197154	NA	source_name: Yeast cell culture, Butyric acid treatment || strain: SC5314 || treatment: Butyric acid (IC50) || ph: 5.5 || time point: T4 (76h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328666	GSM1197154	GSM1197154	GSM1197154: B4D; Candida albicans; RNA-Seq	GEO Accession: GSM1197154	SRR944243	GSM1197154_r1	NA	13846655	1412358810	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944243.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464796	GSM1197150	NA	source_name: Yeast cell culture, pH control || strain: SC5314 || treatment: HCl || ph: 5.5 || time point: T4 (76h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328662	GSM1197150	GSM1197150	GSM1197150: H4C; Candida albicans; RNA-Seq	GEO Accession: GSM1197150	SRR944239	GSM1197150_r1	NA	13133440	1339610880	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944239.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745914	GSM1547906	NA	source_name: Yeast cell culture, Propionic acid treatment || strain: SC5314 || treatment: Propionic acid (IC50) || ph: 5.5 || time point: T3 (52h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761380	GSM1547906	GSM1547906	GSM1547906: RYY020; Candida albicans; RNA-Seq	GEO Accession: GSM1547906	SRR1654855	GSM1547906_r1	NA	14045342	1432624884	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654855.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745915	GSM1547907	NA	source_name: Yeast cell culture, Acetic acid treatment || strain: SC5314 || treatment: Acetic acid (IC15) || ph: 5.5 || time point: T4 (76h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761381	GSM1547907	GSM1547907	GSM1547907: RYY021; Candida albicans; RNA-Seq	GEO Accession: GSM1547907	SRR1654856	GSM1547907_r1	NA	14501335	1479136170	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654856.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464788	GSM1197142	NA	source_name: Yeast cell culture, Propionic acid treatment || strain: SC5314 || treatment: Propionic acid (IC50) || ph: 5.5 || time point: T1 (4h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328654	GSM1197142	GSM1197142	GSM1197142: P1C; Candida albicans; RNA-Seq	GEO Accession: GSM1197142	SRR944231	GSM1197142_r1	NA	12863691	1312096482	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944231.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464787	GSM1197141	NA	source_name: Yeast cell culture, Acetic acid treatment || strain: SC5314 || treatment: Acetic acid (IC15) || ph: 5.5 || time point: T4 (76h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328653	GSM1197141	GSM1197141	GSM1197141: A4C; Candida albicans; RNA-Seq	GEO Accession: GSM1197141	SRR944230	GSM1197141_r1	NA	13068478	1332984756	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944230.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464806	GSM1197160	NA	source_name: Yeast cell culture, Propionic acid treatment || strain: SC5314 || treatment: Propionic acid (IC50) || ph: 5.5 || time point: T1 (4h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328672	GSM1197160	GSM1197160	GSM1197160: P1D; Candida albicans; RNA-Seq	GEO Accession: GSM1197160	SRR944249	GSM1197160_r1	NA	13689510	1396330020	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944249.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745923	GSM1547915	NA	source_name: Yeast cell culture, Butyric acid treatment || strain: SC5314 || treatment: Butyric acid (IC50) || ph: 5.5 || time point: T2 (28h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761389	GSM1547915	GSM1547915	GSM1547915: RYY034; Candida albicans; RNA-Seq	GEO Accession: GSM1547915	SRR1654864	GSM1547915_r1	NA	13944914	1422381228	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654864.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464815	GSM1197169	NA	source_name: Yeast cell culture, Butyric acid treatment || strain: SC5314 || treatment: Butyric acid (IC50) || ph: 5.5 || time point: T4 (76h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328681	GSM1197169	GSM1197169	GSM1197169: B4F; Candida albicans; RNA-Seq	GEO Accession: GSM1197169	SRR944258	GSM1197169_r1	NA	11883794	1212146988	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944258.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745908	GSM1547900	NA	source_name: Yeast cell culture, Lactic acid treatment || strain: SC5314 || treatment: Lactic acid (IC50) || ph: 5.5 || time point: T3 (52h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761374	GSM1547900	GSM1547900	GSM1547900: RYY014; Candida albicans; RNA-Seq	GEO Accession: GSM1547900	SRR1654849	GSM1547900_r1	NA	12373979	1262145858	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654849.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464779	GSM1197133	NA	source_name: Yeast cell culture, Butyric acid treatment || strain: SC5314 || treatment: Butyric acid (IC50) || ph: 5.5 || time point: T1 (4h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328645	GSM1197133	GSM1197133	GSM1197133: B1B; Candida albicans; RNA-Seq	GEO Accession: GSM1197133	SRR944222	GSM1197133_r1	NA	10620129	1083253158	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944222.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464807	GSM1197161	NA	source_name: Yeast cell culture, Lactic acid treatment || strain: SC5314 || treatment: Lactic acid (IC50) || ph: 5.5 || time point: T4 (76h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328673	GSM1197161	GSM1197161	GSM1197161: L4D; Candida albicans; RNA-Seq	GEO Accession: GSM1197161	SRR944250	GSM1197161_r1	NA	14981083	1528070466	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944250.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464786	GSM1197140	NA	source_name: Yeast cell culture, untreated control || strain: SC5314 || treatment: None || ph: 5.8 || time point: T4 (76h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328652	GSM1197140	GSM1197140	GSM1197140: C4B; Candida albicans; RNA-Seq	GEO Accession: GSM1197140	SRR944229	GSM1197140_r1	NA	10817958	1103431716	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944229.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464808	GSM1197162	NA	source_name: Yeast cell culture, Acetic acid treatment || strain: SC5314 || treatment: Acetic acid (IC15) || ph: 5.5 || time point: T1 (4h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328674	GSM1197162	GSM1197162	GSM1197162: A1D; Candida albicans; RNA-Seq	GEO Accession: GSM1197162	SRR944251	GSM1197162_r1	NA	16399131	1672711362	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944251.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464810	GSM1197164	NA	source_name: Yeast cell culture, Propionic acid treatment || strain: SC5314 || treatment: Propionic acid (IC50) || ph: 5.5 || time point: T4 (76h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328676	GSM1197164	GSM1197164	GSM1197164: P4D; Candida albicans; RNA-Seq	GEO Accession: GSM1197164	SRR944253	GSM1197164_r1	NA	14706008	1500012816	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944253.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464799	GSM1197153	NA	source_name: Yeast cell culture, pH control || strain: SC5314 || treatment: HCl || ph: 5.5 || time point: T4 (76h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328665	GSM1197153	GSM1197153	GSM1197153: H4D; Candida albicans; RNA-Seq	GEO Accession: GSM1197153	SRR944242	GSM1197153_r1	NA	12663794	1291706988	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944242.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464813	GSM1197167	NA	source_name: Yeast cell culture, Propionic acid treatment || strain: SC5314 || treatment: Propionic acid (IC50) || ph: 5.5 || time point: T4 (76h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328679	GSM1197167	GSM1197167	GSM1197167: P4F; Candida albicans; RNA-Seq	GEO Accession: GSM1197167	SRR944256	GSM1197167_r1	NA	12074555	1231604610	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944256.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745907	GSM1547899	NA	source_name: Yeast cell culture, pH control || strain: SC5314 || treatment: HCl || ph: 5.5 || time point: T2 (28h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761373	GSM1547899	GSM1547899	GSM1547899: RYY013; Candida albicans; RNA-Seq	GEO Accession: GSM1547899	SRR1654848	GSM1547899_r1	NA	14788654	1508442708	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654848.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464801	GSM1197155	NA	source_name: Yeast cell culture, untreated control || strain: SC5314 || treatment: None || ph: 5.8 || time point: T1 (4h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328667	GSM1197155	GSM1197155	GSM1197155: C1D; Candida albicans; RNA-Seq	GEO Accession: GSM1197155	SRR944244	GSM1197155_r1	NA	13357039	1362417978	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944244.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745909	GSM1547903	NA	source_name: Yeast cell culture, untreated control || strain: SC5314 || treatment: None || ph: 5.8 || time point: T2 (28h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761377	GSM1547903	GSM1547903	GSM1547903: RYY017; Candida albicans; RNA-Seq	GEO Accession: GSM1547903	SRR1654852	GSM1547903_r1	NA	19228486	1961305572	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654852.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745947	GSM1547939	NA	source_name: Yeast cell culture, untreated control || strain: SC5314 || treatment: None || ph: 5.8 || time point: T3 (52h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761413	GSM1547939	GSM1547939	GSM1547939: RYY081; Candida albicans; RNA-Seq	GEO Accession: GSM1547939	SRR1654888	GSM1547939_r1	NA	11448933	1167791166	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654888.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464785	GSM1197139	NA	source_name: Yeast cell culture, pH control || strain: SC5314 || treatment: HCl || ph: 5.5 || time point: T1 (4h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328651	GSM1197139	GSM1197139	GSM1197139: H1B; Candida albicans; RNA-Seq	GEO Accession: GSM1197139	SRR944228	GSM1197139_r1	NA	10074195	1027567890	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944228.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464783	GSM1197137	NA	source_name: Yeast cell culture, Lactic acid treatment || strain: SC5314 || treatment: Lactic acid (IC50) || ph: 5.5 || time point: T1 (4h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328649	GSM1197137	GSM1197137	GSM1197137: L1B; Candida albicans; RNA-Seq	GEO Accession: GSM1197137	SRR944226	GSM1197137_r1	NA	11056545	1127767590	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944226.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464797	GSM1197151	NA	source_name: Yeast cell culture, Butyric acid treatment || strain: SC5314 || treatment: Butyric acid (IC50) || ph: 5.5 || time point: T1 (4h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328663	GSM1197151	GSM1197151	GSM1197151: B1C; Candida albicans; RNA-Seq	GEO Accession: GSM1197151	SRR944240	GSM1197151_r1	NA	15183075	1548673650	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944240.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745926	GSM1547918	NA	source_name: Yeast cell culture, pH control || strain: SC5314 || treatment: HCl || ph: 5.5 || time point: T2 (28h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761392	GSM1547918	GSM1547918	GSM1547918: RYY041; Candida albicans; RNA-Seq	GEO Accession: GSM1547918	SRR1654867	GSM1547918_r1	NA	13357396	1362454392	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654867.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464776	GSM1197130	NA	source_name: Yeast cell culture, untreated control || strain: SC5314 || treatment: None || ph: 5.8 || time point: T1 (4h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328642	GSM1197130	GSM1197130	GSM1197130: C1B; Candida albicans; RNA-Seq	GEO Accession: GSM1197130	SRR944219	GSM1197130_r1	NA	12272997	1251845694	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944219.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464780	GSM1197134	NA	source_name: Yeast cell culture, Lactic acid treatment || strain: SC5314 || treatment: Lactic acid (IC50) || ph: 5.5 || time point: T4 (76h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328646	GSM1197134	GSM1197134	GSM1197134: L4B; Candida albicans; RNA-Seq	GEO Accession: GSM1197134	SRR944223	GSM1197134_r1	NA	11453710	1168278420	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944223.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464789	GSM1197143	NA	source_name: Yeast cell culture, Lactic acid treatment || strain: SC5314 || treatment: Lactic acid (IC50) || ph: 5.5 || time point: T1 (4h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328655	GSM1197143	GSM1197143	GSM1197143: L1C; Candida albicans; RNA-Seq	GEO Accession: GSM1197143	SRR944232	GSM1197143_r1	NA	13591395	1386322290	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944232.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464819	GSM1197173	NA	source_name: Yeast cell culture, Lactic acid treatment || strain: SC5314 || treatment: Lactic acid (IC50) || ph: 5.5 || time point: T1 (4h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328685	GSM1197173	GSM1197173	GSM1197173: L1F; Candida albicans; RNA-Seq	GEO Accession: GSM1197173	SRR944262	GSM1197173_r1	NA	12996287	1325621274	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944262.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745952	GSM1547945	NA	source_name: Yeast cell culture, Butyric acid treatment || strain: SC5314 || treatment: Butyric acid (IC50) || ph: 5.5 || time point: T3 (52h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761419	GSM1547945	GSM1547945	GSM1547945: RYY093; Candida albicans; RNA-Seq	GEO Accession: GSM1547945	SRR1654894	GSM1547945_r1	NA	13078710	1334028420	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654894.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745925	GSM1547917	NA	source_name: Yeast cell culture, Propionic acid treatment || strain: SC5314 || treatment: Propionic acid (IC50) || ph: 5.5 || time point: T3 (52h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761391	GSM1547917	GSM1547917	GSM1547917: RYY038; Candida albicans; RNA-Seq	GEO Accession: GSM1547917	SRR1654866	GSM1547917_r1	NA	12741466	1299629532	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654866.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464802	GSM1197156	NA	source_name: Yeast cell culture, pH control || strain: SC5314 || treatment: HCl || ph: 5.5 || time point: T1 (4h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328668	GSM1197156	GSM1197156	GSM1197156: H1D; Candida albicans; RNA-Seq	GEO Accession: GSM1197156	SRR944245	GSM1197156_r1	NA	14229466	1451405532	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944245.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464784	GSM1197138	NA	source_name: Yeast cell culture, Propionic acid treatment || strain: SC5314 || treatment: Propionic acid (IC50) || ph: 5.5 || time point: T1 (4h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328650	GSM1197138	GSM1197138	GSM1197138: P1B; Candida albicans; RNA-Seq	GEO Accession: GSM1197138	SRR944227	GSM1197138_r1	NA	12373344	1262081088	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944227.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745932	GSM1547921	NA	source_name: Yeast cell culture, untreated control || strain: SC5314 || treatment: None || ph: 5.8 || time point: T2 (28h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761395	GSM1547921	GSM1547921	GSM1547921: RYY046; Candida albicans; RNA-Seq	GEO Accession: GSM1547921	SRR1654870	GSM1547921_r1	NA	14888339	1518610578	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654870.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464792	GSM1197146	NA	source_name: Yeast cell culture, Propionic acid treatment || strain: SC5314 || treatment: Propionic acid (IC50) || ph: 5.5 || time point: T4 (76h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328658	GSM1197146	GSM1197146	GSM1197146: P4C; Candida albicans; RNA-Seq	GEO Accession: GSM1197146	SRR944235	GSM1197146_r1	NA	11040001	1126080102	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944235.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464794	GSM1197148	NA	source_name: Yeast cell culture, Acetic acid treatment || strain: SC5314 || treatment: Acetic acid (IC15) || ph: 5.5 || time point: T1 (4h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328660	GSM1197148	GSM1197148	GSM1197148: A1C; Candida albicans; RNA-Seq	GEO Accession: GSM1197148	SRR944237	GSM1197148_r1	NA	12966213	1322553726	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944237.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464804	GSM1197159	NA	source_name: Yeast cell culture, untreated control || strain: SC5314 || treatment: None || ph: 5.8 || time point: T4 (76h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328671	GSM1197159	GSM1197159	GSM1197159: C4D; Candida albicans; RNA-Seq	GEO Accession: GSM1197159	SRR944248	GSM1197159_r1	NA	15657564	1597071528	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944248.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464811	GSM1197165	NA	source_name: Yeast cell culture, Acetic acid treatment || strain: SC5314 || treatment: Acetic acid (IC15) || ph: 5.5 || time point: T4 (76h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328677	GSM1197165	GSM1197165	GSM1197165: A4F; Candida albicans; RNA-Seq	GEO Accession: GSM1197165	SRR944254	GSM1197165_r1	NA	15499240	1580922480	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944254.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745917	GSM1547909	NA	source_name: Yeast cell culture, Propionic acid treatment || strain: SC5314 || treatment: Propionic acid (IC50) || ph: 5.5 || time point: T2 (28h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761383	GSM1547909	GSM1547909	GSM1547909: RYY023; Candida albicans; RNA-Seq	GEO Accession: GSM1547909	SRR1654858	GSM1547909_r1	NA	14821583	1511801466	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654858.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464777	GSM1197131	NA	source_name: Yeast cell culture, pH control || strain: SC5314 || treatment: HCl || ph: 5.5 || time point: T4 (76h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328643	GSM1197131	GSM1197131	GSM1197131: H4B; Candida albicans; RNA-Seq	GEO Accession: GSM1197131	SRR944220	GSM1197131_r1	NA	12897156	1315509912	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944220.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745919	GSM1547911	NA	source_name: Yeast cell culture, Acetic acid treatment || strain: SC5314 || treatment: Acetic acid (IC15) || ph: 5.5 || time point: T2 (28h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761385	GSM1547911	GSM1547911	GSM1547911: RYY028; Candida albicans; RNA-Seq	GEO Accession: GSM1547911	SRR1654860	GSM1547911_r1	NA	11109583	1133177466	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654860.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745949	GSM1547941	NA	source_name: Yeast cell culture, Butyric acid treatment || strain: SC5314 || treatment: Butyric acid (IC50) || ph: 5.5 || time point: T2 (28h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761415	GSM1547941	GSM1547941	GSM1547941: RYY085; Candida albicans; RNA-Seq	GEO Accession: GSM1547941	SRR1654890	GSM1547941_r1	NA	13439514	1370830428	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654890.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745951	GSM1547944	NA	source_name: Yeast cell culture, pH control || strain: SC5314 || treatment: HCl || ph: 5.5 || time point: T2 (28h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761418	GSM1547944	GSM1547944	GSM1547944: RYY092; Candida albicans; RNA-Seq	GEO Accession: GSM1547944	SRR1654893	GSM1547944_r1	NA	12520111	1277051322	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654893.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745934	GSM1547926	NA	source_name: Yeast cell culture, Lactic acid treatment || strain: SC5314 || treatment: Lactic acid (IC50) || ph: 5.5 || time point: T2 (28h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761400	GSM1547926	GSM1547926	GSM1547926: RYY056; Candida albicans; RNA-Seq	GEO Accession: GSM1547926	SRR1654875	GSM1547926_r1	NA	15074547	1537603794	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654875.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745943	GSM1547935	NA	source_name: Yeast cell culture, Acetic acid treatment || strain: SC5314 || treatment: Acetic acid (IC15) || ph: 5.5 || time point: T2 (28h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761409	GSM1547935	GSM1547935	GSM1547935: RYY073; Candida albicans; RNA-Seq	GEO Accession: GSM1547935	SRR1654884	GSM1547935_r1	NA	11208907	1143308514	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654884.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464793	GSM1197147	NA	source_name: Yeast cell culture, Butyric acid treatment || strain: SC5314 || treatment: Butyric acid (IC50) || ph: 5.5 || time point: T4 (76h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328659	GSM1197147	GSM1197147	GSM1197147: B4C; Candida albicans; RNA-Seq	GEO Accession: GSM1197147	SRR944236	GSM1197147_r1	NA	11860732	1209794664	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944236.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745933	GSM1547925	NA	source_name: Yeast cell culture, Butyric acid treatment || strain: SC5314 || treatment: Butyric acid (IC50) || ph: 5.5 || time point: T3 (52h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761399	GSM1547925	GSM1547925	GSM1547925: RYY054; Candida albicans; RNA-Seq	GEO Accession: GSM1547925	SRR1654874	GSM1547925_r1	NA	11741225	1197604950	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654874.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745929	GSM1547922	NA	source_name: Yeast cell culture, Lactic acid treatment || strain: SC5314 || treatment: Lactic acid (IC50) || ph: 5.5 || time point: T2 (28h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761396	GSM1547922	GSM1547922	GSM1547922: RYY047; Candida albicans; RNA-Seq	GEO Accession: GSM1547922	SRR1654871	GSM1547922_r1	NA	12927333	1318587966	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654871.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745928	GSM1547920	NA	source_name: Yeast cell culture, untreated control || strain: SC5314 || treatment: None || ph: 5.8 || time point: T3 (52h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761394	GSM1547920	GSM1547920	GSM1547920: RYY043; Candida albicans; RNA-Seq	GEO Accession: GSM1547920	SRR1654869	GSM1547920_r1	NA	13728300	1400286600	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654869.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464778	GSM1197132	NA	source_name: Yeast cell culture, Propionic acid treatment || strain: SC5314 || treatment: Propionic acid (IC50) || ph: 5.5 || time point: T4 (76h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328644	GSM1197132	GSM1197132	GSM1197132: P4B; Candida albicans; RNA-Seq	GEO Accession: GSM1197132	SRR944221	GSM1197132_r1	NA	11142221	1136506542	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944221.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745927	GSM1547919	NA	source_name: Yeast cell culture, Lactic acid treatment || strain: SC5314 || treatment: Lactic acid (IC50) || ph: 5.5 || time point: T3 (52h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761393	GSM1547919	GSM1547919	GSM1547919: RYY042; Candida albicans; RNA-Seq	GEO Accession: GSM1547919	SRR1654868	GSM1547919_r1	NA	14278765	1456434030	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654868.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745954	GSM1547947	NA	source_name: Yeast cell culture, pH control || strain: SC5314 || treatment: HCl || ph: 5.5 || time point: T3 (52h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761421	GSM1547947	GSM1547947	GSM1547947: RYY096; Candida albicans; RNA-Seq	GEO Accession: GSM1547947	SRR1654896	GSM1547947_r1	NA	13588642	1386041484	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654896.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745921	GSM1547913	NA	source_name: Yeast cell culture, Propionic acid treatment || strain: SC5314 || treatment: Propionic acid (IC50) || ph: 5.5 || time point: T2 (28h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761387	GSM1547913	GSM1547913	GSM1547913: RYY031; Candida albicans; RNA-Seq	GEO Accession: GSM1547913	SRR1654862	GSM1547913_r1	NA	12708764	1296293928	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654862.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745924	GSM1547916	NA	source_name: Yeast cell culture, Acetic acid treatment || strain: SC5314 || treatment: Acetic acid (IC15) || ph: 5.5 || time point: T3 (52h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761390	GSM1547916	GSM1547916	GSM1547916: RYY036; Candida albicans; RNA-Seq	GEO Accession: GSM1547916	SRR1654865	GSM1547916_r1	NA	12611378	1286360556	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654865.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745936	GSM1547927	NA	source_name: Yeast cell culture, Lactic acid treatment || strain: SC5314 || treatment: Lactic acid (IC50) || ph: 5.5 || time point: T3 (52h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761401	GSM1547927	GSM1547927	GSM1547927: RYY058; Candida albicans; RNA-Seq	GEO Accession: GSM1547927	SRR1654876	GSM1547927_r1	NA	15104630	1540672260	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654876.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745944	GSM1547936	NA	source_name: Yeast cell culture, Propionic acid treatment || strain: SC5314 || treatment: Propionic acid (IC50) || ph: 5.5 || time point: T3 (52h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761410	GSM1547936	GSM1547936	GSM1547936: RYY074; Candida albicans; RNA-Seq	GEO Accession: GSM1547936	SRR1654885	GSM1547936_r1	NA	14153956	1443703512	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654885.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464791	GSM1197145	NA	source_name: Yeast cell culture, untreated control || strain: SC5314 || treatment: None || ph: 5.8 || time point: T1 (4h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328657	GSM1197145	GSM1197145	GSM1197145: C1C; Candida albicans; RNA-Seq	GEO Accession: GSM1197145	SRR944234	GSM1197145_r1	NA	13356658	1362379116	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944234.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745953	GSM1547943	NA	source_name: Yeast cell culture, untreated control || strain: SC5314 || treatment: None || ph: 5.8 || time point: T2 (28h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761417	GSM1547943	GSM1547943	GSM1547943: RYY088; Candida albicans; RNA-Seq	GEO Accession: GSM1547943	SRR1654892	GSM1547943_r1	NA	11143567	1136643834	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654892.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745950	GSM1547942	NA	source_name: Yeast cell culture, Acetic acid treatment || strain: SC5314 || treatment: Acetic acid (IC15) || ph: 5.5 || time point: T3 (52h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761416	GSM1547942	GSM1547942	GSM1547942: RYY087; Candida albicans; RNA-Seq	GEO Accession: GSM1547942	SRR1654891	GSM1547942_r1	NA	15477295	1578684090	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654891.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745935	GSM1547928	NA	source_name: Yeast cell culture, pH control || strain: SC5314 || treatment: HCl || ph: 5.5 || time point: T3 (52h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761402	GSM1547928	GSM1547928	GSM1547928: RYY059; Candida albicans; RNA-Seq	GEO Accession: GSM1547928	SRR1654877	GSM1547928_r1	NA	12257811	1250296722	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654877.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745930	GSM1547923	NA	source_name: Yeast cell culture, untreated control || strain: SC5314 || treatment: None || ph: 5.8 || time point: T3 (52h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761397	GSM1547923	GSM1547923	GSM1547923: RYY049; Candida albicans; RNA-Seq	GEO Accession: GSM1547923	SRR1654872	GSM1547923_r1	NA	12162191	1240543482	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654872.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745941	GSM1547933	NA	source_name: Yeast cell culture, Acetic acid treatment || strain: SC5314 || treatment: Acetic acid (IC15) || ph: 5.5 || time point: T2 (28h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761407	GSM1547933	GSM1547933	GSM1547933: RYY067; Candida albicans; RNA-Seq	GEO Accession: GSM1547933	SRR1654882	GSM1547933_r1	NA	13086464	1334819328	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654882.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745939	GSM1547931	NA	source_name: Yeast cell culture, Acetic acid treatment || strain: SC5314 || treatment: Acetic acid (IC15) || ph: 5.5 || time point: T3 (52h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761405	GSM1547931	GSM1547931	GSM1547931: RYY064; Candida albicans; RNA-Seq	GEO Accession: GSM1547931	SRR1654880	GSM1547931_r1	NA	12675540	1292905080	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654880.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745948	GSM1547940	NA	source_name: Yeast cell culture, Propionic acid treatment || strain: SC5314 || treatment: Propionic acid (IC50) || ph: 5.5 || time point: T2 (28h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761414	GSM1547940	GSM1547940	GSM1547940: RYY083; Candida albicans; RNA-Seq	GEO Accession: GSM1547940	SRR1654889	GSM1547940_r1	NA	11567675	1179902850	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654889.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745940	GSM1547932	NA	source_name: Yeast cell culture, Butyric acid treatment || strain: SC5314 || treatment: Butyric acid (IC50) || ph: 5.5 || time point: T2 (28h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761406	GSM1547932	GSM1547932	GSM1547932: RYY066; Candida albicans; RNA-Seq	GEO Accession: GSM1547932	SRR1654881	GSM1547932_r1	NA	12801801	1305783702	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654881.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745945	GSM1547937	NA	source_name: Yeast cell culture, Lactic acid treatment || strain: SC5314 || treatment: Lactic acid (IC50) || ph: 5.5 || time point: T3 (52h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761411	GSM1547937	GSM1547937	GSM1547937: RYY075; Candida albicans; RNA-Seq	GEO Accession: GSM1547937	SRR1654886	GSM1547937_r1	NA	12558900	1281007800	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654886.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745946	GSM1547938	NA	source_name: Yeast cell culture, Lactic acid treatment || strain: SC5314 || treatment: Lactic acid (IC50) || ph: 5.5 || time point: T2 (28h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761412	GSM1547938	GSM1547938	GSM1547938: RYY078; Candida albicans; RNA-Seq	GEO Accession: GSM1547938	SRR1654887	GSM1547938_r1	NA	13235668	1350038136	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654887.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745913	GSM1547905	NA	source_name: Yeast cell culture, Acetic acid treatment || strain: SC5314 || treatment: Acetic acid (IC15) || ph: 5.5 || time point: T2 (28h) || replicate: B	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761379	GSM1547905	GSM1547905	GSM1547905: RYY019; Candida albicans; RNA-Seq	GEO Accession: GSM1547905	SRR1654854	GSM1547905_r1	NA	12456418	1270554636	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654854.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745955	GSM1547946	NA	source_name: Yeast cell culture, Lactic acid treatment || strain: SC5314 || treatment: Lactic acid (IC50) || ph: 5.5 || time point: T4 (76h) || replicate: F	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761420	GSM1547946	GSM1547946	GSM1547946: RYY095; Candida albicans; RNA-Seq	GEO Accession: GSM1547946	SRR1654895	GSM1547946_r1	NA	13512162	1378240524	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654895.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745938	GSM1547929	NA	source_name: Yeast cell culture, untreated control || strain: SC5314 || treatment: None || ph: 5.8 || time point: T2 (28h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761403	GSM1547929	GSM1547929	GSM1547929: RYY060; Candida albicans; RNA-Seq	GEO Accession: GSM1547929	SRR1654878	GSM1547929_r1	NA	13672937	1394639574	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654878.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745937	GSM1547930	NA	source_name: Yeast cell culture, pH control || strain: SC5314 || treatment: HCl || ph: 5.5 || time point: T2 (28h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761404	GSM1547930	GSM1547930	GSM1547930: RYY062; Candida albicans; RNA-Seq	GEO Accession: GSM1547930	SRR1654879	GSM1547930_r1	NA	14442045	1473088590	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654879.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS464790	GSM1197144	NA	source_name: Yeast cell culture, Lactic acid treatment || strain: SC5314 || treatment: Lactic acid (IC50) || ph: 5.5 || time point: T4 (76h) || replicate: C	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX328656	GSM1197144	GSM1197144	GSM1197144: L4C; Candida albicans; RNA-Seq	GEO Accession: GSM1197144	SRR944233	GSM1197144_r1	NA	12634371	1288705842	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR944233.sra	2018
SRA096182	NA	2015-01-29	2018-05-24T18:09:52Z	SRP028297	GSE49310	GSE49310	The Transcriptional Stress Response of Candida albicans to Weak Organic Acids	Transcriptome Analysis	Candida albicans is the most important fungal pathogen of humans, causing severe infections especially in nosocomial and immunocompromised settings.  However, it is also the most prevalent fungus of the normal human microbiome, where it shares its habitat with hundreds of trillions of other microbial cells.  Despite weak organic acids (WOAs) being among the most abundant metabolites produced by bacterial microbiota, little is known about their effect on C. albicans.  Here we employed a sequencing-based profiling strategy to systematically investigate the transcriptional stress response of C. albicans to lactic, acetic, propionic and butyric acid at several time points after treatment.  Our data reveal a complex transcriptional response, with individual WOAs triggering unique gene expression profiles and with important differences between acute and chronic exposure.  In spite of all these dissimilarities, we found significant overlaps between the gene expression changes induced by each WOA, which lead us to uncover a core transcriptional signature that was unrelated to the general response to low pH.  Genes commonly up-regulated by WOAs were enriched in several iron transporters, which was associated with an overall decrease in intracellular iron concentrations.  Moreover, chronic exposure to any WOA lead to down-regulation of RNA synthesis and ribosome biogenesis genes, which resulted in significant reduction of total RNA levels in general and of ribosomal RNA in particular.  In conclusion, this study suggests that GI microbiota might directly influence C. albicans physiology via production of WOAs, with possible implications of how this fungus interacts with its hosts in both health and disease. Overall design: Transcriptional profiling of wild-type Candida albicans strain SC5314 under 6 differents condition (2 controls, 4 weak acids) at 4 time points by cDNA deep-sequencing, with 4 biological replicates, on the Illumina HiSeq 2000 platform. 96 total samples were sequenced (6 x 4 x 4).	GSE49310	NA	NA	NA	NA	SRS745942	GSM1547934	NA	source_name: Yeast cell culture, Propionic acid treatment || strain: SC5314 || treatment: Propionic acid (IC50) || ph: 5.5 || time point: T3 (52h) || replicate: D	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Yeast were centrifuged, flash frozen in liquid nitrogen, and total RNA was extraced using the hot phenol protocol. RNA samples were subjected to cDNA synthesis using Illumina TruSeq® RNA sample preparation kit version 2 (Low-Throughput protocol) according to manufacturer’s protocol.	TRUE	NA	SRX761408	GSM1547934	GSM1547934	GSM1547934: RYY068; Candida albicans; RNA-Seq	GEO Accession: GSM1547934	SRR1654883	GSM1547934_r1	NA	12457254	1270639908	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR1654883.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	in vitro Candida albicans (exponential growth phase) rep1, non-enriched	in vitro Candida albicans (exponential growth phase) rep1, non-enriched	SRS933957	C5_N	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: not applicable || host_disease: not applicable || isolation_source: not applicable || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	in vitro rep1 non-enriched	RNA-Seq	TRANSCRIPTOMIC	RANDOM	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024551	C5_N	NA	RNA-seq of C.albicans: in vitro rep1 non-enriched	NA	SRR2027853	C5_N	NA	3972995	401272495	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2027853.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	infected galleria 2h post infection rep1, non-enriched	infected galleria 2h post infection rep1, non-enriched	SRS933963	G6_N	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: Galleria mellonella || host_disease: systemic candidiasis || isolation_source: whole larva || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	infected galleria 2h rep1 non-enriched	RNA-Seq	TRANSCRIPTOMIC	RANDOM	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024557	G6_N	NA	RNA-seq of C.albicans: infected galleria 2h rep1 non-enriched	NA	SRR2027855	G6_N	NA	205817129	20787530029	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2027855.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	in vitro Candida albicans (exponential growth phase) rep1 spiked 1% in mouse RNA, enriched	in vitro Candida albicans (exponential growth phase) rep1 spiked 1% in mouse RNA, enriched	SRS933955	KC5_E	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: not applicable || host_disease: not applicable || isolation_source: not applicable || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	in vitro rep1 spiked mouse enriched	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024531	KC5_E	NA	RNA-seq of C.albicans: in vitro rep1 spiked mouse enriched	NA	SRR2017808	KC5_E	NA	22604751	2283079851	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2017808.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	infected mouse 16h post infection rep1, enriched, tech rep 2	infected mouse 16h post infection rep1, enriched, tech rep 2	SRS933968	K23_2_E	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: Mus musculus || host_disease: systemic candidiasis || isolation_source: kidneys || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	infected mouse 16h rep1 enriched, tech rep 2	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024564	K23_2_E	NA	RNA-seq of C.albicans: infected mouse 16h rep1 enriched, tech rep 2	NA	SRR2017837	K23_2_E	NA	64211119	6485323019	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2017837.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	in vitro Candida albicans (exponential growth phase) rep1, enriched	in vitro Candida albicans (exponential growth phase) rep1, enriched	SRS933956	C5_E	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: not applicable || host_disease: not applicable || isolation_source: not applicable || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	in vitro rep1 enriched	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024550	C5_E	NA	RNA-seq of C.albicans: in vitro rep1 enriched	NA	SRR2027852	C5_E	NA	77523044	7829827444	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2027852.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	infected galleria 2h post infection rep2, non-enriched	infected galleria 2h post infection rep2, non-enriched	SRS933965	G12_N	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: Galleria mellonella || host_disease: systemic candidiasis || isolation_source: whole larva || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	infected galleria 2h rep2 non-enriched	RNA-Seq	TRANSCRIPTOMIC	RANDOM	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024559	G12_N	NA	RNA-seq of C.albicans: infected galleria 2h rep2 non-enriched	NA	SRR2027857	G12_N	NA	186860585	18872919085	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2027857.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	infected mouse 16h post infection rep1, non-enriched	infected mouse 16h post infection rep1, non-enriched	SRS933971	K23_N	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: Mus musculus || host_disease: systemic candidiasis || isolation_source: kidneys || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	infected mouse 16h rep1 non-enriched	RNA-Seq	TRANSCRIPTOMIC	RANDOM	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024565	K23_N	NA	RNA-seq of C.albicans: infected mouse 16h rep1 non-enriched	NA	SRR2027859	K23_N	NA	202093217	20411414917	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2027859.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	in vitro Candida albicans (exponential growth phase) rep3 spiked 1% in mouse RNA, enriched	in vitro Candida albicans (exponential growth phase) rep3 spiked 1% in mouse RNA, enriched	SRS933960	KC11_E	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: not applicable || host_disease: not applicable || isolation_source: not applicable || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	in vitro rep3 spiked mouse enriched	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024554	KC11_E	NA	RNA-seq of C.albicans: in vitro rep3 spiked mouse enriched	NA	SRR2017834	KC11_E	NA	55629185	5618547685	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2017834.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	infected mouse 16h post infection rep1, enriched	infected mouse 16h post infection rep1, enriched	SRS933969	K23_E	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: Mus musculus || host_disease: systemic candidiasis || isolation_source: kidneys || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	infected mouse 16h rep1 enriched	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024563	K23_E	NA	RNA-seq of C.albicans: infected mouse 16h rep1 enriched	NA	SRR2027858	K23_E	NA	43032593	4346291893	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2027858.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	in vitro Candida albicans (exponential growth phase) rep1 spiked 1% in galleria RNA, enriched	in vitro Candida albicans (exponential growth phase) rep1 spiked 1% in galleria RNA, enriched	SRS933932	GC5_E	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: not applicable || host_disease: not applicable || isolation_source: not applicable || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	in vitro rep1 spiked galleria enriched	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024509	GC5_E	NA	RNA-seq of C.albicans: in vitro rep1 spiked galleria enriched	NA	SRR2017788	GC5_E	NA	64551589	6519710489	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2017788.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	infected galleria 24h post infection rep1, enriched	infected galleria 24h post infection rep1, enriched	SRS933966	G9_E	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: Galleria mellonella || host_disease: systemic candidiasis || isolation_source: whole larva || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	infected galleria 24h rep1 enriched	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024560	G9_E	NA	RNA-seq of C.albicans: infected galleria 24h rep1 enriched	NA	SRR2017836	G9_E	NA	46987133	4745700433	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2017836.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	in vitro Candida albicans (exponential growth phase) rep3, non-enriched	in vitro Candida albicans (exponential growth phase) rep3, non-enriched	SRS933961	C11_N	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: not applicable || host_disease: not applicable || isolation_source: not applicable || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	in vitro rep3 non-enriched	RNA-Seq	TRANSCRIPTOMIC	RANDOM	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024555	C11_N	NA	RNA-seq of C.albicans: in vitro rep3 non-enriched	NA	SRR2017835	C11_N	NA	31718836	3203602436	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2017835.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	infected mouse 16h post infection rep2, enriched, tech rep 2	infected mouse 16h post infection rep2, enriched, tech rep 2	SRS933974	K29_2_E	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: Mus musculus || host_disease: systemic candidiasis || isolation_source: kidneys || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	infected mouse 16h rep2 enriched, tech rep 2	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024567	K29_2_E	NA	RNA-seq of C.albicans: infected mouse 16h rep2 enriched, tech rep 2	NA	SRR2017838	K29_2_E	NA	58819072	5940726272	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2017838.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	infected galleria 2h post infection rep1, enriched	infected galleria 2h post infection rep1, enriched	SRS933962	G6_E	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: Galleria mellonella || host_disease: systemic candidiasis || isolation_source: whole larva || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	infected galleria 2h rep1 enriched	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024556	G6_E	NA	RNA-seq of C.albicans: infected galleria 2h rep1 enriched	NA	SRR2027854	G6_E	NA	26326927	2659019627	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2027854.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	infected mouse 16h post infection rep2, enriched	infected mouse 16h post infection rep2, enriched	SRS933972	K29_E	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: Mus musculus || host_disease: systemic candidiasis || isolation_source: kidneys || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	infected mouse 16h rep2 enriched	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024566	K29_E	NA	RNA-seq of C.albicans: infected mouse 16h rep2 enriched	NA	SRR2027860	K29_E	NA	34415815	3475997315	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2027860.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	infected galleria 2h post infection rep2, enriched	infected galleria 2h post infection rep2, enriched	SRS933964	G12_E	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: Galleria mellonella || host_disease: systemic candidiasis || isolation_source: whole larva || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	infected galleria 2h rep2 enriched	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024558	G12_E	NA	RNA-seq of C.albicans: infected galleria 2h rep2 enriched	NA	SRR2027856	G12_E	NA	238857673	24124624973	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2027856.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	in vitro Candida albicans (exponential growth phase) rep2, non-enriched	in vitro Candida albicans (exponential growth phase) rep2, non-enriched	SRS933959	C6_N	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: not applicable || host_disease: not applicable || isolation_source: not applicable || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	in vitro rep2 non-enriched	RNA-Seq	TRANSCRIPTOMIC	RANDOM	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024553	C6_N	NA	RNA-seq of C.albicans: in vitro rep2 non-enriched	NA	SRR2017845	C6_N	NA	9653994	975053394	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2017845.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	infected mouse 16h post infection rep2, non-enriched	infected mouse 16h post infection rep2, non-enriched	SRS933973	K29_N	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: Mus musculus || host_disease: systemic candidiasis || isolation_source: kidneys || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	infected mouse 16h rep2 non-enriched	RNA-Seq	TRANSCRIPTOMIC	RANDOM	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024568	K29_N	NA	RNA-seq of C.albicans: infected mouse 16h rep2 non-enriched	NA	SRR2027861	K29_N	NA	183817306	18565547906	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2027861.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	infected mouse 48h post infection rep1, enriched	infected mouse 48h post infection rep1, enriched	SRS933977	K26_E	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: Mus musculus || host_disease: systemic candidiasis || isolation_source: kidneys || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	infected mouse 48h rep1 enriched	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024569	K26_E	NA	RNA-seq of C.albicans: infected mouse 48h rep1 enriched	NA	SRR2017840	K26_E	NA	67593958	6826989758	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2017840.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	infected galleria 24h post infection rep2, enriched	infected galleria 24h post infection rep2, enriched	SRS933970	G16_E	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: Galleria mellonella || host_disease: systemic candidiasis || isolation_source: whole larva || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	infected galleria 24h rep2 enriched	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024562	G16_E	NA	RNA-seq of C.albicans: infected galleria 24h rep2 enriched	NA	SRR2017841	G16_E	NA	56863979	5743261879	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2017841.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	infected mouse 48h post infection rep2, enriched	infected mouse 48h post infection rep2, enriched	SRS933976	K37_E	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: Mus musculus || host_disease: systemic candidiasis || isolation_source: kidneys || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	infected mouse 48h rep2 enriched	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024571	K37_E	NA	RNA-seq of C.albicans: infected mouse 48h rep2 enriched	NA	SRR2017839	K37_E	NA	55716754	5627392154	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2017839.sra	2018
SRA267754	Vital-IT	2015-10-01	2018-05-24T18:09:52Z	SRP058281	PRJNA283587	NA	Candida albicans SC5314 Transcriptome or Gene expression	Other	Candida albicans transcriptome during infection of mouse kidneys and Galleria mellonella, at early and late stages of infection.	Candida albicans SC5314	NA	NA	in vitro Candida albicans (exponential growth phase) rep2 spiked 1% in galleria RNA, enriched	in vitro Candida albicans (exponential growth phase) rep2 spiked 1% in galleria RNA, enriched	SRS933958	GC6_E	NA	strain: SC5314 || collected_by: S. Amorim-Vaz || collection_date: Nov-2014 || geo_loc_name: Switzerland: Lausanne || host: not applicable || host_disease: not applicable || isolation_source: not applicable || lat_lon: not collected || BioSampleModel: Pathogen.cl	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	in vitro rep2 spiked galleria enriched	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX1024552	GC6_E	NA	RNA-seq of C.albicans: in vitro rep2 spiked galleria enriched	NA	SRR2017833	GC6_E	NA	55441305	5599571805	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2017833.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089196	GSM1893026	NA	source_name: fungal cells || genotype: wild-type || hydrogenperoxide_treatment: untreated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286157	GSM1893026	GSM1893026	GSM1893026: wtu5_12881; Candida albicans; RNA-Seq	GEO Accession: GSM1893026	SRR2513866	GSM1893026_r1	NA	31061465	1553073250	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513866.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089185	GSM1893036	NA	source_name: fungal cells || genotype: hat1delta/delta || hydrogenperoxide_treatment: untreated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286170	GSM1893036	GSM1893036	GSM1893036: hat1u5_12883; Candida albicans; RNA-Seq	GEO Accession: GSM1893036	SRR2513876	GSM1893036_r1	NA	29214442	1460722100	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513876.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089184	GSM1893037	NA	source_name: fungal cells || genotype: hat1delta/delta || hydrogenperoxide_treatment: treated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286171	GSM1893037	GSM1893037	GSM1893037: hat1t1_15102; Candida albicans; RNA-Seq	GEO Accession: GSM1893037	SRR2513877	GSM1893037_r1	NA	18021361	901068050	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513877.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089187	GSM1893034	NA	source_name: fungal cells || genotype: hat1delta/delta || hydrogenperoxide_treatment: untreated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286168	GSM1893034	GSM1893034	GSM1893034: hat1u3_15113; Candida albicans; RNA-Seq	GEO Accession: GSM1893034	SRR2513874	GSM1893034_r1	NA	19536771	976838550	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513874.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089199	GSM1893023	NA	source_name: fungal cells || genotype: wild-type || hydrogenperoxide_treatment: untreated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286153	GSM1893023	GSM1893023	GSM1893023: wtu2_15107; Candida albicans; RNA-Seq	GEO Accession: GSM1893023	SRR2513863	GSM1893023_r1	NA	18556104	927805200	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513863.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089182	GSM1893039	NA	source_name: fungal cells || genotype: hat1delta/delta || hydrogenperoxide_treatment: treated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286173	GSM1893039	GSM1893039	GSM1893039: hat1t3_15114; Candida albicans; RNA-Seq	GEO Accession: GSM1893039	SRR2513879	GSM1893039_r1	NA	17245339	862266950	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513879.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089183	GSM1893038	NA	source_name: fungal cells || genotype: hat1delta/delta || hydrogenperoxide_treatment: treated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286172	GSM1893038	GSM1893038	GSM1893038: hat1t2_15110; Candida albicans; RNA-Seq	GEO Accession: GSM1893038	SRR2513878	GSM1893038_r1	NA	19094876	954743800	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513878.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089177	GSM1893044	NA	source_name: fungal cells || genotype: cac2delta/delta || hydrogenperoxide_treatment: untreated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286178	GSM1893044	GSM1893044	GSM1893044: cac2u3_15117; Candida albicans; RNA-Seq	GEO Accession: GSM1893044	SRR2513884	GSM1893044_r1	NA	17633091	881654550	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513884.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089195	GSM1893027	NA	source_name: fungal cells || genotype: wild-type || hydrogenperoxide_treatment: treated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286159	GSM1893027	GSM1893027	GSM1893027: wtt1_15100; Candida albicans; RNA-Seq	GEO Accession: GSM1893027	SRR2513867	GSM1893027_r1	NA	17008887	850444350	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513867.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089168	GSM1893052	NA	source_name: fungal cells || genotype: rtt109delta/delta || hydrogenperoxide_treatment: treated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286189	GSM1893052	GSM1893052	GSM1893052: rtt109t2_15120; Candida albicans; RNA-Seq	GEO Accession: GSM1893052	SRR2513892	GSM1893052_r1	NA	22644658	1132232900	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513892.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089186	GSM1893035	NA	source_name: fungal cells || genotype: hat1delta/delta || hydrogenperoxide_treatment: untreated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286169	GSM1893035	GSM1893035	GSM1893035: hat1u4_12882; Candida albicans; RNA-Seq	GEO Accession: GSM1893035	SRR2513875	GSM1893035_r1	NA	24129220	1206461000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513875.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089200	GSM1893022	NA	source_name: fungal cells || genotype: wild-type || hydrogenperoxide_treatment: untreated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286152	GSM1893022	GSM1893022	GSM1893022: wtu1_15099; Candida albicans; RNA-Seq	GEO Accession: GSM1893022	SRR2513862	GSM1893022_r1	NA	15748354	787417700	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513862.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089167	GSM1893053	NA	source_name: fungal cells || genotype: rtt109delta/delta || hydrogenperoxide_treatment: treated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286190	GSM1893053	GSM1893053	GSM1893053: rtt109t3_15116; Candida albicans; RNA-Seq	GEO Accession: GSM1893053	SRR2513893	GSM1893053_r1	NA	16722564	836128200	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513893.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089188	GSM1893033	NA	source_name: fungal cells || genotype: hat1delta/delta || hydrogenperoxide_treatment: untreated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286167	GSM1893033	GSM1893033	GSM1893033: hat1u2_15109; Candida albicans; RNA-Seq	GEO Accession: GSM1893033	SRR2513873	GSM1893033_r1	NA	22553220	1127661000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513873.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089181	GSM1893040	NA	source_name: fungal cells || genotype: hat1delta/delta || hydrogenperoxide_treatment: treated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286174	GSM1893040	GSM1893040	GSM1893040: hat1t4_12886; Candida albicans; RNA-Seq	GEO Accession: GSM1893040	SRR2513880	GSM1893040_r1	NA	27103164	1355158200	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513880.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089194	GSM1893028	NA	source_name: fungal cells || genotype: wild-type || hydrogenperoxide_treatment: treated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286160	GSM1893028	GSM1893028	GSM1893028: wtt2_15108; Candida albicans; RNA-Seq	GEO Accession: GSM1893028	SRR2513868	GSM1893028_r1	NA	16659496	832974800	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513868.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089192	GSM1893030	NA	source_name: fungal cells || genotype: wild-type || hydrogenperoxide_treatment: treated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286163	GSM1893030	GSM1893030	GSM1893030: wtt4_12884; Candida albicans; RNA-Seq	GEO Accession: GSM1893030	SRR2513870	GSM1893030_r1	NA	26719511	1335975550	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513870.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089179	GSM1893042	NA	source_name: fungal cells || genotype: cac2delta/delta || hydrogenperoxide_treatment: untreated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286176	GSM1893042	GSM1893042	GSM1893042: cac2u1_15105; Candida albicans; RNA-Seq	GEO Accession: GSM1893042	SRR2513882	GSM1893042_r1	NA	15063064	753153200	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513882.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089190	GSM1893031	NA	source_name: fungal cells || genotype: wild-type || hydrogenperoxide_treatment: treated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286165	GSM1893031	GSM1893031	GSM1893031: wtt5_12885; Candida albicans; RNA-Seq	GEO Accession: GSM1893031	SRR2513871	GSM1893031_r1	NA	31254815	1562740750	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513871.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089174	GSM1893047	NA	source_name: fungal cells || genotype: cac2delta/delta || hydrogenperoxide_treatment: treated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286181	GSM1893047	GSM1893047	GSM1893047: cac2t3_15118; Candida albicans; RNA-Seq	GEO Accession: GSM1893047	SRR2513887	GSM1893047_r1	NA	18800795	940039750	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513887.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089180	GSM1893041	NA	source_name: fungal cells || genotype: hat1delta/delta || hydrogenperoxide_treatment: treated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286175	GSM1893041	GSM1893041	GSM1893041: hat1t5_12887; Candida albicans; RNA-Seq	GEO Accession: GSM1893041	SRR2513881	GSM1893041_r1	NA	26200495	1310024750	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513881.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089171	GSM1893050	NA	source_name: fungal cells || genotype: rtt109delta/delta || hydrogenperoxide_treatment: untreated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286186	GSM1893050	GSM1893050	GSM1893050: rtt109u3_15115; Candida albicans; RNA-Seq	GEO Accession: GSM1893050	SRR2513890	GSM1893050_r1	NA	19694036	984701800	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513890.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089197	GSM1893025	NA	source_name: fungal cells || genotype: wild-type || hydrogenperoxide_treatment: untreated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286156	GSM1893025	GSM1893025	GSM1893025: wtu4_12880; Candida albicans; RNA-Seq	GEO Accession: GSM1893025	SRR2513865	GSM1893025_r1	NA	29815914	1490795700	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513865.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089193	GSM1893029	NA	source_name: fungal cells || genotype: wild-type || hydrogenperoxide_treatment: treated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286162	GSM1893029	GSM1893029	GSM1893029: wtt3_15112; Candida albicans; RNA-Seq	GEO Accession: GSM1893029	SRR2513869	GSM1893029_r1	NA	21262177	1063108850	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513869.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089178	GSM1893043	NA	source_name: fungal cells || genotype: cac2delta/delta || hydrogenperoxide_treatment: untreated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286177	GSM1893043	GSM1893043	GSM1893043: cac2u2_15121; Candida albicans; RNA-Seq	GEO Accession: GSM1893043	SRR2513883	GSM1893043_r1	NA	21565541	1078277050	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513883.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089175	GSM1893046	NA	source_name: fungal cells || genotype: cac2delta/delta || hydrogenperoxide_treatment: treated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286180	GSM1893046	GSM1893046	GSM1893046: cac2t2_15122; Candida albicans; RNA-Seq	GEO Accession: GSM1893046	SRR2513886	GSM1893046_r1	NA	19045826	952291300	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513886.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089172	GSM1893049	NA	source_name: fungal cells || genotype: rtt109delta/delta || hydrogenperoxide_treatment: untreated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286184	GSM1893049	GSM1893049	GSM1893049: rtt109u2_15119; Candida albicans; RNA-Seq	GEO Accession: GSM1893049	SRR2513889	GSM1893049_r1	NA	17498084	874904200	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513889.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089189	GSM1893032	NA	source_name: fungal cells || genotype: hat1delta/delta || hydrogenperoxide_treatment: untreated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286166	GSM1893032	GSM1893032	GSM1893032: hat1u1_15101; Candida albicans; RNA-Seq	GEO Accession: GSM1893032	SRR2513872	GSM1893032_r1	NA	13821324	691066200	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513872.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089173	GSM1893048	NA	source_name: fungal cells || genotype: rtt109delta/delta || hydrogenperoxide_treatment: untreated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286183	GSM1893048	GSM1893048	GSM1893048: rtt109u1_15103; Candida albicans; RNA-Seq	GEO Accession: GSM1893048	SRR2513888	GSM1893048_r1	NA	16892706	844635300	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513888.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089198	GSM1893024	NA	source_name: fungal cells || genotype: wild-type || hydrogenperoxide_treatment: untreated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286154	GSM1893024	GSM1893024	GSM1893024: wtu3_15111; Candida albicans; RNA-Seq	GEO Accession: GSM1893024	SRR2513864	GSM1893024_r1	NA	25711287	1285564350	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513864.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089170	GSM1893051	NA	source_name: fungal cells || genotype: rtt109delta/delta || hydrogenperoxide_treatment: treated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286187	GSM1893051	GSM1893051	GSM1893051: rtt109t1_15104; Candida albicans; RNA-Seq	GEO Accession: GSM1893051	SRR2513891	GSM1893051_r1	NA	13015305	650765250	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513891.sra	2018
SRA300916	NA	2015-09-28	2018-05-24T18:09:52Z	SRP064163	GSE73409	GSE73409	The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways	Transcriptome Analysis	Transcriptome analysis of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans cells prior to and after treatment with hydrogen was done to determine the transcriptional changes in these three mutatns in logarithmically growing cells as well as under oxidative stress conditions. Overall design: RNA Sequencing was performed of wild type, Hat1-deficient, Cac2-deficient and Rtt109-deficient Candida albicans strains prior to and after treatment with hydrogen peroxide. Cells were grown to the exponential phase in YPD at 30oC. Aliquots were harvested for RNA isolation and to the remaining culture hydrogen eproxide was added to a final concentration of 1.6 mM. After 30 min incubation at 30°C cells were harvested for RNA isolation. Five biological replicates were done for the wild type and Hat1-deficient cells and three biological replicates were done for Cac2-deficient and Rtt109-deficient strains.	GSE73409	NA	NA	NA	NA	SRS1089176	GSM1893045	NA	source_name: fungal cells || genotype: cac2delta/delta || hydrogenperoxide_treatment: treated	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	RNA was isolated using Trizol and glass bead lysis after which RNA was precipitated and DNase treated followed by a column purification step. 5μg total RNA was depleted of rRNAs using the RiboMinus Eukaryote System v2 (Invitrogen), rRNA-depleted RNA was fragmented using the NEBNext Magnesium RNA Fragmentation Module (NEB). First strand cDNA was synthesized with the SuperScript III Reverse Transcriptase (Invitrogen) and second strand synthesis was done using the NEBNext mRNA Second Strand Synthesis Module (NEB) according to the manufacturer’s instructions. Library preparation was done using the KAPA DNA Library Preparation Kit (Kapa Biosystems) according to the manufacturer’s instructions.	FALSE	NA	SRX1286179	GSM1893045	GSM1893045	GSM1893045: cac2t1_15106; Candida albicans; RNA-Seq	GEO Accession: GSM1893045	SRR2513885	GSM1893045_r1	NA	16919428	845971400	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR2513885.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596452	JK0127-13	NA	strain: JK0127-13 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7R	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993745	BI_735	NA	NA	NA	SRR3992528	BI_735	NA	16071224	2989247664	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992528.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596454	JK0127-20	NA	strain: JK0127-20 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7Y	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993747	BI_742	NA	NA	NA	SRR3992530	BI_742	NA	16662336	3099194496	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992530.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596442	JK0127-23	NA	strain: JK0127-23 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R82	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993735	BI_745	NA	NA	NA	SRR3992518	BI_745	NA	4436388	825168168	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992518.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596451	JK0127-28	NA	strain: JK0127-28 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R87	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993744	BI_750	NA	NA	NA	SRR3992527	BI_750	NA	7249387	1348385982	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992527.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596470	JK0127-1	NA	strain: JK0127-1 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7F	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993763	BI_723	NA	NA	NA	SRR3992546	BI_723	NA	15757297	2930857242	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992546.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596461	JK0127-5	NA	strain: JK0127-5 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7J	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993755	BI_727	NA	NA	NA	SRR3992538	BI_727	NA	14617827	2718915822	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992538.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596444	JK0127-11	NA	strain: JK0127-11 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7P	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993737	BI_733	NA	NA	NA	SRR3992520	BI_733	NA	6262800	1164880800	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992520.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596467	JK0127-22	NA	strain: JK0127-22 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R81	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993760	BI_744	NA	NA	NA	SRR3992543	BI_744	NA	11610831	2159614566	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992543.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596466	JK0127-31	NA	strain: JK0127-31 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R8A	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993759	BI_753	NA	NA	NA	SRR3992542	BI_753	NA	14542774	2704955964	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992542.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596448	JK0127-29	NA	strain: JK0127-29 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R88	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993741	BI_751	NA	NA	NA	SRR3992524	BI_751	NA	4106105	763735530	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992524.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596460	JK0127-7	NA	strain: JK0127-7 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7L	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993753	BI_729	NA	NA	NA	SRR3992536	BI_729	NA	14292099	2658330414	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992536.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596443	JK0127-27	NA	strain: JK0127-27 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R86	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993736	BI_749	NA	NA	NA	SRR3992519	BI_749	NA	804742	149682012	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992519.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596455	JK0127-24	NA	strain: JK0127-24 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R83	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993748	BI_746	NA	NA	NA	SRR3992531	BI_746	NA	9048581	1683036066	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992531.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596469	JK0127-10	NA	strain: JK0127-10 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7O	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993762	BI_732	NA	NA	NA	SRR3992545	BI_732	NA	12579496	2339786256	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992545.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596449	JK0127-21	NA	strain: JK0127-21 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7Z	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993742	BI_743	NA	NA	NA	SRR3992525	BI_743	NA	4744670	882508620	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992525.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596447	JK0127-30	NA	strain: JK0127-30 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R89	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993740	BI_752	NA	NA	NA	SRR3992523	BI_752	NA	8423478	1566766908	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992523.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596472	JK0127-17	NA	strain: JK0127-17 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7V	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993765	BI_739	NA	NA	NA	SRR3992548	BI_739	NA	19909867	3703235262	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992548.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596450	JK0127-32	NA	strain: JK0127-32 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R8B	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993743	BI_754	NA	NA	NA	SRR3992526	BI_754	NA	4387969	816162234	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992526.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596453	JK0127-12	NA	strain: JK0127-12 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7Q	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993746	BI_734	NA	NA	NA	SRR3992529	BI_734	NA	9259577	1722281322	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992529.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596465	JK0127-2	NA	strain: JK0127-2 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7G	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993758	BI_724	NA	NA	NA	SRR3992541	BI_724	NA	14946750	2780095500	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992541.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596446	JK0127-15	NA	strain: JK0127-15 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7T	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993739	BI_737	NA	NA	NA	SRR3992522	BI_737	NA	12444135	2314609110	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992522.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596462	JK0127-16	NA	strain: JK0127-16 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7U	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993754	BI_738	NA	NA	NA	SRR3992537	BI_738	NA	10478437	1948989282	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992537.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596458	JK0127-4	NA	strain: JK0127-4 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7I	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993751	BI_726	NA	NA	NA	SRR3992534	BI_726	NA	11517826	2142315636	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992534.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596468	JK0127-3	NA	strain: JK0127-3 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7H	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993761	BI_725	NA	NA	NA	SRR3992544	BI_725	NA	15985817	2973361962	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992544.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596464	JK0127-26	NA	strain: JK0127-26 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R85	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993757	BI_748	NA	NA	NA	SRR3992540	BI_748	NA	12886523	2396893278	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992540.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596445	JK0127-8	NA	strain: JK0127-8 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7M	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993738	BI_730	NA	NA	NA	SRR3992521	BI_730	NA	9536974	1773877164	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992521.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596473	JK0127-18	NA	strain: JK0127-18 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7W	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993766	BI_740	NA	NA	NA	SRR3992549	BI_740	NA	19397044	3607850184	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992549.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596457	JK0127-19	NA	strain: JK0127-19 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7X	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993750	BI_741	NA	NA	NA	SRR3992533	BI_741	NA	9910705	1843391130	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992533.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596456	JK0127-25	NA	strain: JK0127-25 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R84	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993749	BI_747	NA	NA	NA	SRR3992532	BI_747	NA	12276467	2283422862	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992532.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596459	JK0127-9	NA	strain: JK0127-9 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7N	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993752	BI_731	NA	NA	NA	SRR3992535	BI_731	NA	13923690	2589806340	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992535.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596471	JK0127-6	NA	strain: JK0127-6 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7K	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993764	BI_728	NA	NA	NA	SRR3992547	BI_728	NA	12056079	2242430694	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992547.sra	2018
SRA447438	NA	2016-08-28	2018-05-24T18:09:52Z	SRP080770	PRJNA327830	NA	Candida albicans Sequencing	Transcriptome Analysis	Sequencing of C.albicans	Candida albicans	NA	NA	missing	NA	SRS1596463	JK0127-14	NA	strain: JK0127-14 || isolate: missing || host: missing || isolation_source: missing || collection_date: 2016 || geo_loc_name: USA:Massachusetts:Boston || sample_type: Whole Organism || altitude: missing || biomaterial_provider: missing || collected_by: missing || culture_collection: missing || depth: missing || env_biome: missing || genotype: missing || host_tissue_sampled: missing || identified_by: missing || lab_host: missing || lat_lon: missing || mating_type: missing || passage_history: missing || samp_size: missing || serotype: missing || serovar: missing || specimen_voucher: missing || temp: missing || BioSampleModel: Microbe, viral or environmental	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SM-56R7S	RNA-Seq	TRANSCRIPTOMIC	RANDOM	PAIRED -	TagSeq RNA Library Construction and Sequencing	TRUE	NA	SRX1993756	BI_736	NA	NA	NA	SRR3992539	BI_736	NA	14646822	2724308892	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR3992539.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677349	GSM2305383	NA	source_name: cyr1∆/∆::CYR1 pH 4 || parental strain: SC5314 || genotype: cyr1 delta/delta:: CYR1 || medium ph: 4	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146083	GSM2305383	GSM2305383	GSM2305383: cyr1∆/∆::CYR1 pH 4 replicate 1; Candida albicans; RNA-Seq	GEO Accession: GSM2305383	SRR4191258	GSM2305383_r4	NA	6656269	991791760	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191258.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677350	GSM2305384	NA	source_name: cyr1∆/∆::CYR1 pH 7 || parental strain: SC5314 || genotype: cyr1 delta/delta:: CYR1 || medium ph: 7	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146084	GSM2305384	GSM2305384	GSM2305384: cyr1∆/∆::CYR1 pH 7 replicate 1; Candida albicans; RNA-Seq	GEO Accession: GSM2305384	SRR4191261	GSM2305384_r3	NA	5845330	871022048	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191261.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677350	GSM2305384	NA	source_name: cyr1∆/∆::CYR1 pH 7 || parental strain: SC5314 || genotype: cyr1 delta/delta:: CYR1 || medium ph: 7	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146084	GSM2305384	GSM2305384	GSM2305384: cyr1∆/∆::CYR1 pH 7 replicate 1; Candida albicans; RNA-Seq	GEO Accession: GSM2305384	SRR4191259	GSM2305384_r1	NA	5941071	885293650	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191259.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677350	GSM2305384	NA	source_name: cyr1∆/∆::CYR1 pH 7 || parental strain: SC5314 || genotype: cyr1 delta/delta:: CYR1 || medium ph: 7	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146084	GSM2305384	GSM2305384	GSM2305384: cyr1∆/∆::CYR1 pH 7 replicate 1; Candida albicans; RNA-Seq	GEO Accession: GSM2305384	SRR4191260	GSM2305384_r2	NA	5803573	864796568	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191260.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677351	GSM2305385	NA	source_name: cyr1∆/∆::CYR1 pH 4 || parental strain: SC5314 || genotype: cyr1 delta/delta:: CYR1 || medium ph: 4	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146085	GSM2305385	GSM2305385	GSM2305385: cyr1∆/∆::CYR1 pH 4 replicate 2; Candida albicans; RNA-Seq	GEO Accession: GSM2305385	SRR4191264	GSM2305385_r2	NA	6296293	938164317	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191264.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677345	GSM2305379	NA	source_name: cyr1∆/∆ pH 4 || parental strain: SC5314 || genotype: cyr1 delta/delta || medium ph: 4	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146079	GSM2305379	GSM2305379	GSM2305379: cyr1∆/∆ pH 4 replicate 1; Candida albicans; RNA-Seq	GEO Accession: GSM2305379	SRR4191245	GSM2305379_r3	NA	5898790	878961417	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191245.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677350	GSM2305384	NA	source_name: cyr1∆/∆::CYR1 pH 7 || parental strain: SC5314 || genotype: cyr1 delta/delta:: CYR1 || medium ph: 7	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146084	GSM2305384	GSM2305384	GSM2305384: cyr1∆/∆::CYR1 pH 7 replicate 1; Candida albicans; RNA-Seq	GEO Accession: GSM2305384	SRR4191262	GSM2305384_r4	NA	5849052	871573554	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191262.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677348	GSM2305382	NA	source_name: cyr1∆/∆ pH 7 || parental strain: SC5314 || genotype: cyr1 delta/delta || medium ph: 7	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146082	GSM2305382	GSM2305382	GSM2305382: cyr1∆/∆ pH 7 replicate 2; Candida albicans; RNA-Seq	GEO Accession: GSM2305382	SRR4191254	GSM2305382_r4	NA	5045356	751760034	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191254.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677352	GSM2305386	NA	source_name: cyr1∆/∆::CYR1 pH 7 || parental strain: SC5314 || genotype: cyr1 delta/delta:: CYR1 || medium ph: 7	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146086	GSM2305386	GSM2305386	GSM2305386: cyr1∆/∆::CYR1 pH 7 replicate 2; Candida albicans; RNA-Seq	GEO Accession: GSM2305386	SRR4191268	GSM2305386_r2	NA	5600568	834428890	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191268.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677352	GSM2305386	NA	source_name: cyr1∆/∆::CYR1 pH 7 || parental strain: SC5314 || genotype: cyr1 delta/delta:: CYR1 || medium ph: 7	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146086	GSM2305386	GSM2305386	GSM2305386: cyr1∆/∆::CYR1 pH 7 replicate 2; Candida albicans; RNA-Seq	GEO Accession: GSM2305386	SRR4191267	GSM2305386_r1	NA	5776102	860595178	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191267.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677348	GSM2305382	NA	source_name: cyr1∆/∆ pH 7 || parental strain: SC5314 || genotype: cyr1 delta/delta || medium ph: 7	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146082	GSM2305382	GSM2305382	GSM2305382: cyr1∆/∆ pH 7 replicate 2; Candida albicans; RNA-Seq	GEO Accession: GSM2305382	SRR4191242	GSM2305382_r2	NA	4985687	742870339	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191242.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677346	GSM2305380	NA	source_name: cyr1∆/∆ pH 7 || parental strain: SC5314 || genotype: cyr1 delta/delta || medium ph: 7	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146080	GSM2305380	GSM2305380	GSM2305380: cyr1∆/∆ pH 7 replicate 1; Candida albicans; RNA-Seq	GEO Accession: GSM2305380	SRR4191248	GSM2305380_r2	NA	5981044	890833412	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191248.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677349	GSM2305383	NA	source_name: cyr1∆/∆::CYR1 pH 4 || parental strain: SC5314 || genotype: cyr1 delta/delta:: CYR1 || medium ph: 4	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146083	GSM2305383	GSM2305383	GSM2305383: cyr1∆/∆::CYR1 pH 4 replicate 1; Candida albicans; RNA-Seq	GEO Accession: GSM2305383	SRR4191255	GSM2305383_r1	NA	6763549	1007786147	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191255.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677347	GSM2305381	NA	source_name: cyr1∆/∆ pH 4 || parental strain: SC5314 || genotype: cyr1 delta/delta || medium ph: 4	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146081	GSM2305381	GSM2305381	GSM2305381: cyr1∆/∆ pH 4 replicate 2; Candida albicans; RNA-Seq	GEO Accession: GSM2305381	SRR4191251	GSM2305381_r1	NA	6020975	897114977	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191251.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677347	GSM2305381	NA	source_name: cyr1∆/∆ pH 4 || parental strain: SC5314 || genotype: cyr1 delta/delta || medium ph: 4	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146081	GSM2305381	GSM2305381	GSM2305381: cyr1∆/∆ pH 4 replicate 2; Candida albicans; RNA-Seq	GEO Accession: GSM2305381	SRR4191240	GSM2305381_r4	NA	5820019	867166263	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191240.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677346	GSM2305380	NA	source_name: cyr1∆/∆ pH 7 || parental strain: SC5314 || genotype: cyr1 delta/delta || medium ph: 7	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146080	GSM2305380	GSM2305380	GSM2305380: cyr1∆/∆ pH 7 replicate 1; Candida albicans; RNA-Seq	GEO Accession: GSM2305380	SRR4191247	GSM2305380_r1	NA	6118731	911334991	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191247.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677347	GSM2305381	NA	source_name: cyr1∆/∆ pH 4 || parental strain: SC5314 || genotype: cyr1 delta/delta || medium ph: 4	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146081	GSM2305381	GSM2305381	GSM2305381: cyr1∆/∆ pH 4 replicate 2; Candida albicans; RNA-Seq	GEO Accession: GSM2305381	SRR4191252	GSM2305381_r2	NA	5748226	856467144	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191252.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677351	GSM2305385	NA	source_name: cyr1∆/∆::CYR1 pH 4 || parental strain: SC5314 || genotype: cyr1 delta/delta:: CYR1 || medium ph: 4	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146085	GSM2305385	GSM2305385	GSM2305385: cyr1∆/∆::CYR1 pH 4 replicate 2; Candida albicans; RNA-Seq	GEO Accession: GSM2305385	SRR4191265	GSM2305385_r3	NA	6340660	944782058	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191265.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677348	GSM2305382	NA	source_name: cyr1∆/∆ pH 7 || parental strain: SC5314 || genotype: cyr1 delta/delta || medium ph: 7	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146082	GSM2305382	GSM2305382	GSM2305382: cyr1∆/∆ pH 7 replicate 2; Candida albicans; RNA-Seq	GEO Accession: GSM2305382	SRR4191241	GSM2305382_r1	NA	5213491	776827516	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191241.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677351	GSM2305385	NA	source_name: cyr1∆/∆::CYR1 pH 4 || parental strain: SC5314 || genotype: cyr1 delta/delta:: CYR1 || medium ph: 4	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146085	GSM2305385	GSM2305385	GSM2305385: cyr1∆/∆::CYR1 pH 4 replicate 2; Candida albicans; RNA-Seq	GEO Accession: GSM2305385	SRR4191263	GSM2305385_r1	NA	6447866	960754891	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191263.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677349	GSM2305383	NA	source_name: cyr1∆/∆::CYR1 pH 4 || parental strain: SC5314 || genotype: cyr1 delta/delta:: CYR1 || medium ph: 4	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146083	GSM2305383	GSM2305383	GSM2305383: cyr1∆/∆::CYR1 pH 4 replicate 1; Candida albicans; RNA-Seq	GEO Accession: GSM2305383	SRR4191257	GSM2305383_r3	NA	6647935	990555071	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191257.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677349	GSM2305383	NA	source_name: cyr1∆/∆::CYR1 pH 4 || parental strain: SC5314 || genotype: cyr1 delta/delta:: CYR1 || medium ph: 4	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146083	GSM2305383	GSM2305383	GSM2305383: cyr1∆/∆::CYR1 pH 4 replicate 1; Candida albicans; RNA-Seq	GEO Accession: GSM2305383	SRR4191256	GSM2305383_r2	NA	6603864	983981250	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191256.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677351	GSM2305385	NA	source_name: cyr1∆/∆::CYR1 pH 4 || parental strain: SC5314 || genotype: cyr1 delta/delta:: CYR1 || medium ph: 4	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146085	GSM2305385	GSM2305385	GSM2305385: cyr1∆/∆::CYR1 pH 4 replicate 2; Candida albicans; RNA-Seq	GEO Accession: GSM2305385	SRR4191266	GSM2305385_r4	NA	6346828	945703346	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191266.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677346	GSM2305380	NA	source_name: cyr1∆/∆ pH 7 || parental strain: SC5314 || genotype: cyr1 delta/delta || medium ph: 7	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146080	GSM2305380	GSM2305380	GSM2305380: cyr1∆/∆ pH 7 replicate 1; Candida albicans; RNA-Seq	GEO Accession: GSM2305380	SRR4191250	GSM2305380_r4	NA	6029980	898117864	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191250.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677352	GSM2305386	NA	source_name: cyr1∆/∆::CYR1 pH 7 || parental strain: SC5314 || genotype: cyr1 delta/delta:: CYR1 || medium ph: 7	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146086	GSM2305386	GSM2305386	GSM2305386: cyr1∆/∆::CYR1 pH 7 replicate 2; Candida albicans; RNA-Seq	GEO Accession: GSM2305386	SRR4191269	GSM2305386_r3	NA	5671714	845043586	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191269.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677345	GSM2305379	NA	source_name: cyr1∆/∆ pH 4 || parental strain: SC5314 || genotype: cyr1 delta/delta || medium ph: 4	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146079	GSM2305379	GSM2305379	GSM2305379: cyr1∆/∆ pH 4 replicate 1; Candida albicans; RNA-Seq	GEO Accession: GSM2305379	SRR4191244	GSM2305379_r2	NA	5830438	868768318	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191244.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677348	GSM2305382	NA	source_name: cyr1∆/∆ pH 7 || parental strain: SC5314 || genotype: cyr1 delta/delta || medium ph: 7	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146082	GSM2305382	GSM2305382	GSM2305382: cyr1∆/∆ pH 7 replicate 2; Candida albicans; RNA-Seq	GEO Accession: GSM2305382	SRR4191243	GSM2305382_r3	NA	5122827	763313259	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191243.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677345	GSM2305379	NA	source_name: cyr1∆/∆ pH 4 || parental strain: SC5314 || genotype: cyr1 delta/delta || medium ph: 4	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146079	GSM2305379	GSM2305379	GSM2305379: cyr1∆/∆ pH 4 replicate 1; Candida albicans; RNA-Seq	GEO Accession: GSM2305379	SRR4191246	GSM2305379_r4	NA	5899430	879047612	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191246.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677352	GSM2305386	NA	source_name: cyr1∆/∆::CYR1 pH 7 || parental strain: SC5314 || genotype: cyr1 delta/delta:: CYR1 || medium ph: 7	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146086	GSM2305386	GSM2305386	GSM2305386: cyr1∆/∆::CYR1 pH 7 replicate 2; Candida albicans; RNA-Seq	GEO Accession: GSM2305386	SRR4191270	GSM2305386_r4	NA	5645038	841064938	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191270.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677346	GSM2305380	NA	source_name: cyr1∆/∆ pH 7 || parental strain: SC5314 || genotype: cyr1 delta/delta || medium ph: 7	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146080	GSM2305380	GSM2305380	GSM2305380: cyr1∆/∆ pH 7 replicate 1; Candida albicans; RNA-Seq	GEO Accession: GSM2305380	SRR4191249	GSM2305380_r3	NA	6009870	895123693	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191249.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677345	GSM2305379	NA	source_name: cyr1∆/∆ pH 4 || parental strain: SC5314 || genotype: cyr1 delta/delta || medium ph: 4	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146079	GSM2305379	GSM2305379	GSM2305379: cyr1∆/∆ pH 4 replicate 1; Candida albicans; RNA-Seq	GEO Accession: GSM2305379	SRR4191239	GSM2305379_r1	NA	5998209	893775508	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191239.sra	2018
SRA464520	NA	2016-10-23	2018-05-24T18:09:52Z	SRP087490	GSE86540	GSE86540	Effects of pH on the transcriptional profile of adenylate cyclase (cyr1) mutants	Transcriptome Analysis	Purpose : To determine the role played by CaCYR1 in the transcriptional response to differences in medium pH Methods : RNA was extracted from cells subjected to RNA seq Overall design: mRNA profiles of C. albicans cells grown for four hours at 37C in YNB medium/.2% glucose/5mM GlcNAc/50 mM citrate at the indicated pH	GSE86540	NA	NA	NA	NA	SRS1677347	GSM2305381	NA	source_name: cyr1∆/∆ pH 4 || parental strain: SC5314 || genotype: cyr1 delta/delta || medium ph: 4	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: NextSeq 500	NextSeq 500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Cells were pelleted by centrifugation at 5k RPM for 5 minutes and RNA was extracted from cells using the Epicentre Yeast RNA extraction kit and subjected to RNA seq mRNA was enriched by hybridization to oligo dT beads. Directional RNAseq libraries were prepared with TruSeq Stranded mRNA Library Prep chemistry with unique TruSeq indexes, using an automated liquid-handling system. Libraries were pooled and sequenced on a NextSeq500 instrument, 2X75bp PE sequencing (high-output flow cell).	TRUE	NA	SRX2146081	GSM2305381	GSM2305381	GSM2305381: cyr1∆/∆ pH 4 replicate 2; Candida albicans; RNA-Seq	GEO Accession: GSM2305381	SRR4191253	GSM2305381_r3	NA	5925814	882932328	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR4191253.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	wildtype_time15_bioreplicateC	NA	SRS1834039	wt_T15_C	NA	strain: SN250 || isolate: wt_T15_C || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	wt_T15_C	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392583	wt_T15_C	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073493	Luca_Issi_wt_T15_C.bam.right.fq.gz	NA	4460969	678067288	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073493.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	wildtype_time15_bioreplicateA	NA	SRS1834021	wt_T15_A	NA	strain: SN250 || isolate: wt_T15_A || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	wt_T15_A	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392565	wt_T15_A	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073475	Luca_Issi_wt_T15_A.bam.right.fq.gz	NA	3155064	479569728	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073475.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf29_time5_bioreplicateB	NA	SRS1834041	zcf29_T5_B	NA	strain: SN250 || isolate: zcf29_T5_B || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf29_T5_B	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392585	zcf29_T5_B	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073495	Luca_Issi_zcf29_T5_B.bam.right.fq.gz	NA	4110419	624783688	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073495.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf29_time15_bioreplicateB	NA	SRS1834043	zcf29_T15_B	NA	strain: SN250 || isolate: zcf29_T15_B || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf29_T15_B	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392587	zcf29_T15_B	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073497	Luca_Issi_zcf29_T15_B.bam.left.fq.gz	NA	1579107	240024264	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073497.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf29_time15_bioreplicateC	NA	SRS1834034	zcf29_T15_C	NA	strain: SN250 || isolate: zcf29_T15_C || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf29_T15_C	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392578	zcf29_T15_C	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073488	Luca_Issi_zcf29_T15_C.bam.right.fq.gz	NA	4799823	729573096	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073488.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf29_time0_bioreplicateC	NA	SRS1834019	zcf29_TO_C	NA	strain: SN250 || isolate: zcf29_TO_C || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf29_TO_C	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392563	zcf29_TO_C	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073473	Luca_Issi_zcf29_TO_C.bam.left.fq.gz	NA	4455526	677239952	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073473.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf15_time5_bioreplicateB	NA	SRS1834037	zcf15_T5_B	NA	strain: SN250 || isolate: zcf15_T5_B || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf15_T5_B	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392581	zcf15_T5_B	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073491	Luca_Issi_zcf15_T5_B.bam.right.fq.gz	NA	4127803	627426056	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073491.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	wildtype_time0_bioreplicateC	NA	SRS1834023	wt_T0_C	NA	strain: SN250 || isolate: wt_T0_C || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	wt_T0_C	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392567	wt_T0_C	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073477	Luca_Issi_wt_T0_C.bam.right.fq.gz	NA	2809927	427108904	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073477.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf15_time5_bioreplicateA	NA	SRS1834018	zcf15_T5_A	NA	strain: SN250 || isolate: zcf15_T5_A || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf15_T5_A	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392562	zcf15_T5_A	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073472	Luca_Issi_zcf15_T5_A.bam.right.fq.gz	NA	5948547	904179144	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073472.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	wildtype_time0_bioreplicateA	NA	SRS1834040	wt_T0_A	NA	strain: SN250 || isolate: wt_T0_A || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	wt_T0_A	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392584	wt_T0_A	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073494	Luca_Issi_wt_T0_A.bam.left.fq.gz	NA	2559216	389000832	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073494.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	wildtype_time5_bioreplicateA	NA	SRS1834036	wt_T5_A	NA	strain: SN250 || isolate: wt_T5_A || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	wt_T5_A	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392580	wt_T5_A	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073490	Luca_Issi_wt_T5_A.bam.right.fq.gz	NA	3958050	601623600	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073490.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf29_time15_bioreplicateA	NA	SRS1834029	zcf29_T15_A	NA	strain: SN250 || isolate: zcf29_T15_A || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf29_T15_A	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392573	zcf29_T15_A	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073483	Luca_Issi_zcf29_T15_A.bam.left.fq.gz	NA	2115471	321551592	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073483.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf15_time0_bioreplicateC	NA	SRS1834044	zcf15_T0_C	NA	strain: SN250 || isolate: zcf15_T0_C || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf15_T0_C	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392588	zcf15_T0_C	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073498	Luca_Issi_zcf15_T0_C.bam.left.fq.gz	NA	1471967	223738984	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073498.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf15_time15_bioreplicateA	NA	SRS1834027	zcf15_T15_A	NA	strain: SN250 || isolate: zcf15_T15_A || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf15_T15_A	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392571	zcf15_T15_A	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073481	Luca_Issi_zcf15_T15_A.bam.right.fq.gz	NA	2807111	426680872	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073481.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf15_time0_bioreplicateB	NA	SRS1834022	zcf15_T0_B	NA	strain: SN250 || isolate: zcf15_T0_B || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf15_T0_B	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392566	zcf15_T0_B	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073476	Luca_Issi_zcf15_T0_B.bam.right.fq.gz	NA	4927102	748919504	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073476.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf15_time15_bioreplicateB	NA	SRS1834030	zcf15_T15_B	NA	strain: SN250 || isolate: zcf15_T15_B || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf15_T15_B	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392574	zcf15_T15_B	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073484	Luca_Issi_zcf15_T15_B.bam.right.fq.gz	NA	1805202	274390704	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073484.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf29_time0_bioreplicateA	NA	SRS1834020	zcf29_TO_A	NA	strain: SN250 || isolate: zcf29_TO_A || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf29_TO_A	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392564	zcf29_TO_A	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073474	Luca_Issi_zcf29_TO_A.bam.right.fq.gz	NA	4774990	725798480	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073474.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf15_time15_bioreplicateC	NA	SRS1834035	zcf15_T15_C	NA	strain: SN250 || isolate: zcf15_T15_C || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf15_T15_C	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392579	zcf15_T15_C	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073489	Luca_Issi_zcf15_T15_C.bam.right.fq.gz	NA	5025677	763902904	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073489.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf29_time0_bioreplicateB	NA	SRS1834026	zcf29_TO_B	NA	strain: SN250 || isolate: zcf29_TO_B || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf29_TO_B	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392570	zcf29_TO_B	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073480	Luca_Issi_zcf29_TO_B.bam.left.fq.gz	NA	1991968	302779136	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073480.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf29_time5_bioreplicateA	NA	SRS1834025	zcf29_T5_A	NA	strain: SN250 || isolate: zcf29_T5_A || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf29_T5_A	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392569	zcf29_T5_A	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073479	Luca_Issi_zcf29_T5_A.bam.left.fq.gz	NA	6237809	948146968	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073479.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	wildtype_time0_bioreplicateB	NA	SRS1834033	wt_T0_B	NA	strain: SN250 || isolate: wt_T0_B || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	wt_T0_B	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392577	wt_T0_B	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073487	Luca_Issi_wt_T0_B.bam.right.fq.gz	NA	4383115	666233480	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073487.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	wildtype_time5_bioreplicateC	NA	SRS1834024	wt_T5_C	NA	strain: SN250 || isolate: wt_T5_C || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	wt_T5_C	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392568	wt_T5_C	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073478	Luca_Issi_wt_T5_C.bam.left.fq.gz	NA	3960764	602036128	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073478.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	wildtype_time15_bioreplicateB	NA	SRS1834028	wt_T15_B	NA	strain: SN250 || isolate: wt_T15_B || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	wt_T15_B	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392572	wt_T15_B	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073482	Luca_Issi_wt_T15_B.bam.left.fq.gz	NA	2516010	382433520	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073482.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf29_time5_bioreplicateC	NA	SRS1834032	zcf29_T5_C	NA	strain: SN250 || isolate: zcf29_T5_C || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf29_T5_C	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392576	zcf29_T5_C	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073486	Luca_Issi_zcf29_T5_C.bam.left.fq.gz	NA	4675330	710650160	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073486.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf15_time5_bioreplicateC	NA	SRS1834031	zcf15_T5_C	NA	strain: SN250 || isolate: zcf15_T5_C || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf15_T5_C	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392575	zcf15_T5_C	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073485	Luca_Issi_zcf15_T5_C.bam.left.fq.gz	NA	5317582	808272464	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073485.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	wildtype_time5_bioreplicateB	NA	SRS1834042	wt_T5_B	NA	strain: SN250 || isolate: wt_T5_B || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	wt_T5_B	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392586	wt_T5_B	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073496	Luca_Issi_wt_T5_B.bam.right.fq.gz	NA	4521837	687319224	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073496.sra	2018
SRA500503	Genome Sequencing and Analysis Program	2016-12-07	2018-05-24T18:09:52Z	SRP094497	PRJNA356057	NA	Members of the Zinc Cluster Factor family alter virulence in  Candida albicans	Other	RNA-Seq and Chip-Seq of wild type, zcf15 and zcf29	Candida albicans	NA	NA	zcf15_time0_bioreplicateA	NA	SRS1834038	zcf15_T0_A	NA	strain: SN250 || isolate: zcf15_T0_A || isolation_source: experimental || collection_date: 07-Jan-2014 || geo_loc_name: USA: Cambridge, MA || sample_type: whole organism || BioSampleModel: Microbe, viral or environmental	5476	SN250	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	zcf15_T0_A	RNA-Seq	TRANSCRIPTOMIC	other	PAIRED -	NA	TRUE	NA	SRX2392582	zcf15_T0_A	NA	RNA-Seq of wild type, zcf15, and zcf29 Candida albicans	NA	SRR5073492	Luca_Issi_zcf15_T0_A.bam.right.fq.gz	NA	3822182	580971664	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5073492.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065793	GSM2546904	NA	source_name: Tomatidine-treated 1 h || strain: SC5314 || exposure time: 1h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663916	GSM2546904	GSM2546904	GSM2546904: T1_To_r3; Candida albicans; RNA-Seq	GEO Accession: GSM2546904	SRR5368661	GSM2546904_r2	NA	9877274	997604674	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368661.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065795	GSM2546905	NA	source_name: Tomatidine-treated 3 h || strain: SC5314 || exposure time: 3h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663917	GSM2546905	GSM2546905	GSM2546905: T3_To_r1; Candida albicans; RNA-Seq	GEO Accession: GSM2546905	SRR5368662	GSM2546905_r1	NA	12000000	1212000000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368662.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065795	GSM2546905	NA	source_name: Tomatidine-treated 3 h || strain: SC5314 || exposure time: 3h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663917	GSM2546905	GSM2546905	GSM2546905: T3_To_r1; Candida albicans; RNA-Seq	GEO Accession: GSM2546905	SRR5368663	GSM2546905_r2	NA	10796353	1090431653	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368663.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065797	GSM2546906	NA	source_name: Tomatidine-treated 3 h || strain: SC5314 || exposure time: 3h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663918	GSM2546906	GSM2546906	GSM2546906: T3_To_r2; Candida albicans; RNA-Seq	GEO Accession: GSM2546906	SRR5368664	GSM2546906_r1	NA	12000000	1212000000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368664.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065787	GSM2546899	NA	source_name: Untreated for 3 h || strain: SC5314 || exposure time: 3h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663911	GSM2546899	GSM2546899	GSM2546899: T3_nt_r1; Candida albicans; RNA-Seq	GEO Accession: GSM2546899	SRR5368651	GSM2546899_r2	NA	12000000	1212000000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368651.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065789	GSM2546897	NA	source_name: Untreated for 1 h || strain: SC5314 || exposure time: 1h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663909	GSM2546897	GSM2546897	GSM2546897: T1_nt_r2; Candida albicans; RNA-Seq	GEO Accession: GSM2546897	SRR5368646	GSM2546897_r1	NA	12000000	1212000000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368646.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065790	GSM2546900	NA	source_name: Untreated for 3 h || strain: SC5314 || exposure time: 3h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663912	GSM2546900	GSM2546900	GSM2546900: T3_nt_r2; Candida albicans; RNA-Seq	GEO Accession: GSM2546900	SRR5368653	GSM2546900_r2	NA	12000000	1212000000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368653.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065788	GSM2546898	NA	source_name: Untreated for 1 h || strain: SC5314 || exposure time: 1h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663910	GSM2546898	GSM2546898	GSM2546898: T1_nt_r3; Candida albicans; RNA-Seq	GEO Accession: GSM2546898	SRR5368648	GSM2546898_r1	NA	12000000	1212000000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368648.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065791	GSM2546901	NA	source_name: Untreated for 3 h || strain: SC5314 || exposure time: 3h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663913	GSM2546901	GSM2546901	GSM2546901: T3_nt_r3; Candida albicans; RNA-Seq	GEO Accession: GSM2546901	SRR5368655	GSM2546901_r2	NA	10261355	1036396855	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368655.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065792	GSM2546902	NA	source_name: Tomatidine-treated 1 h || strain: SC5314 || exposure time: 1h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663914	GSM2546902	GSM2546902	GSM2546902: T1_To_r1; Candida albicans; RNA-Seq	GEO Accession: GSM2546902	SRR5368657	GSM2546902_r2	NA	6952717	702224417	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368657.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065796	GSM2546907	NA	source_name: Tomatidine-treated 3 h || strain: SC5314 || exposure time: 3h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663919	GSM2546907	GSM2546907	GSM2546907: T3_To_r3; Candida albicans; RNA-Seq	GEO Accession: GSM2546907	SRR5368666	GSM2546907_r1	NA	9687640	978451640	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368666.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065794	GSM2546903	NA	source_name: Tomatidine-treated 1 h || strain: SC5314 || exposure time: 1h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663915	GSM2546903	GSM2546903	GSM2546903: T1_To_r2; Candida albicans; RNA-Seq	GEO Accession: GSM2546903	SRR5368658	GSM2546903_r1	NA	12000000	1212000000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368658.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065788	GSM2546898	NA	source_name: Untreated for 1 h || strain: SC5314 || exposure time: 1h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663910	GSM2546898	GSM2546898	GSM2546898: T1_nt_r3; Candida albicans; RNA-Seq	GEO Accession: GSM2546898	SRR5368649	GSM2546898_r2	NA	8827493	891576793	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368649.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065789	GSM2546897	NA	source_name: Untreated for 1 h || strain: SC5314 || exposure time: 1h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663909	GSM2546897	GSM2546897	GSM2546897: T1_nt_r2; Candida albicans; RNA-Seq	GEO Accession: GSM2546897	SRR5368647	GSM2546897_r2	NA	11821962	1194018162	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368647.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065786	GSM2546896	NA	source_name: Untreated for 1 h || strain: SC5314 || exposure time: 1h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663908	GSM2546896	GSM2546896	GSM2546896: T1_nt_r1; Candida albicans; RNA-Seq	GEO Accession: GSM2546896	SRR5368645	GSM2546896_r2	NA	12000000	1212000000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368645.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065790	GSM2546900	NA	source_name: Untreated for 3 h || strain: SC5314 || exposure time: 3h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663912	GSM2546900	GSM2546900	GSM2546900: T3_nt_r2; Candida albicans; RNA-Seq	GEO Accession: GSM2546900	SRR5368652	GSM2546900_r1	NA	8192119	827404019	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368652.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065793	GSM2546904	NA	source_name: Tomatidine-treated 1 h || strain: SC5314 || exposure time: 1h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663916	GSM2546904	GSM2546904	GSM2546904: T1_To_r3; Candida albicans; RNA-Seq	GEO Accession: GSM2546904	SRR5368660	GSM2546904_r1	NA	12000000	1212000000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368660.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065796	GSM2546907	NA	source_name: Tomatidine-treated 3 h || strain: SC5314 || exposure time: 3h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663919	GSM2546907	GSM2546907	GSM2546907: T3_To_r3; Candida albicans; RNA-Seq	GEO Accession: GSM2546907	SRR5368667	GSM2546907_r2	NA	12000000	1212000000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368667.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065794	GSM2546903	NA	source_name: Tomatidine-treated 1 h || strain: SC5314 || exposure time: 1h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663915	GSM2546903	GSM2546903	GSM2546903: T1_To_r2; Candida albicans; RNA-Seq	GEO Accession: GSM2546903	SRR5368659	GSM2546903_r2	NA	9952531	1005205631	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368659.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065797	GSM2546906	NA	source_name: Tomatidine-treated 3 h || strain: SC5314 || exposure time: 3h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663918	GSM2546906	GSM2546906	GSM2546906: T3_To_r2; Candida albicans; RNA-Seq	GEO Accession: GSM2546906	SRR5368665	GSM2546906_r2	NA	9033879	912421779	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368665.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065791	GSM2546901	NA	source_name: Untreated for 3 h || strain: SC5314 || exposure time: 3h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663913	GSM2546901	GSM2546901	GSM2546901: T3_nt_r3; Candida albicans; RNA-Seq	GEO Accession: GSM2546901	SRR5368654	GSM2546901_r1	NA	12000000	1212000000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368654.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065792	GSM2546902	NA	source_name: Tomatidine-treated 1 h || strain: SC5314 || exposure time: 1h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663914	GSM2546902	GSM2546902	GSM2546902: T1_To_r1; Candida albicans; RNA-Seq	GEO Accession: GSM2546902	SRR5368656	GSM2546902_r1	NA	12000000	1212000000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368656.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065786	GSM2546896	NA	source_name: Untreated for 1 h || strain: SC5314 || exposure time: 1h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663908	GSM2546896	GSM2546896	GSM2546896: T1_nt_r1; Candida albicans; RNA-Seq	GEO Accession: GSM2546896	SRR5368644	GSM2546896_r1	NA	10814152	1092229352	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368644.sra	2018
SRA548789	NA	2017-06-28	2018-05-24T18:09:52Z	SRP102364	GSE96965	GSE96965	Identification and mode of action of a plant natural product targeting human fungal pathogens	Transcriptome Analysis	Candida albicans was subjected to treatment with tomatidine and samples were taken at 2 different time points (1h, 3h). The results show that tomatidine induces genes involved in ergosterol biosynthesis as compared to untreated controls. Overall design: C. albicans SC5314 strain was exposed to 250 µM tomatidine and total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure.	GSE96965	NA	NA	NA	NA	SRS2065787	GSM2546899	NA	source_name: Untreated for 3 h || strain: SC5314 || exposure time: 3h	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total RNA was extracted after 1 h or 3 h tomatidine/solvent exposure by mechanical disruption of the cells with glass beads. Experiments were carried out in triplicates with 12 samples Total RNA extracts were treated with DNase using the DNA-free kit (Ambion-Life Technologies, Zug, Switzerland) and RNA quality and integrity was verified with Fragment Analyzer™ Automated CE System (Advanced Analytical). One µg of RNA was used to create sequencing libraries through standard Illumina TruSeq stranded mRNA protocol. Each library (sample) received a different index enabling several libraries to be multiplexed. Before RNA sequencing, libraries were analyzed with a fragment analyzer to assess quality and fragment size and with a Qubit fluorometer (Invitrogen) to determine cDNA concentration. Libraries were kept at −20°C until sequencing. The 12 libraries were run on Illumina HiSeq platerform (HiSeq2500)	FALSE	NA	SRX2663911	GSM2546899	GSM2546899	GSM2546899: T3_nt_r1; Candida albicans; RNA-Seq	GEO Accession: GSM2546899	SRR5368650	GSM2546899_r1	NA	10962373	1107199673	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5368650.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122624	GSM2577007	NA	source_name: infection only with Candida || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734755	GSM2577007	GSM2577007	GSM2577007: Candida_6h_br1 (part 2); Candida albicans; RNA-Seq	GEO Accession: GSM2577007	SRR5445760	GSM2577007_r1	NA	27062256	1353112800	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445760.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122621	GSM2577009	NA	source_name: infection only with Candida || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734757	GSM2577009	GSM2577009	GSM2577009: Candida_6h_br2 (part 2); Candida albicans; RNA-Seq	GEO Accession: GSM2577009	SRR5445762	GSM2577009_r1	NA	20496795	1024839750	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445762.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122611	GSM2576998	NA	source_name: infection only with Candida || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734746	GSM2576998	GSM2576998	GSM2576998: Candida_2h_br3 (part 1); Candida albicans; RNA-Seq	GEO Accession: GSM2576998	SRR5445751	GSM2576998_r1	NA	70087433	3504371650	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445751.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122628	GSM2577016	NA	source_name: infection with Candida and preincubated with LGGs || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734764	GSM2577016	GSM2577016	GSM2577016: Candida and LGGs_6h_br3 (part 1); Candida albicans; RNA-Seq	GEO Accession: GSM2577016	SRR5445769	GSM2577016_r1	NA	47235463	2361773150	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445769.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122623	GSM2577011	NA	source_name: infection only with Candida || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734759	GSM2577011	GSM2577011	GSM2577011: Candida_6h_br3 (part 2); Candida albicans; RNA-Seq	GEO Accession: GSM2577011	SRR5445764	GSM2577011_r1	NA	35373921	1768696050	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445764.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122627	GSM2577014	NA	source_name: infection with Candida and preincubated with LGGs || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734762	GSM2577014	GSM2577014	GSM2577014: Candida and LGGs_6h_br2 (part 1); Candida albicans; RNA-Seq	GEO Accession: GSM2577014	SRR5445767	GSM2577014_r1	NA	34738690	1736934500	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445767.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122620	GSM2577008	NA	source_name: infection only with Candida || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734756	GSM2577008	GSM2577008	GSM2577008: Candida_6h_br2 (part 1); Candida albicans; RNA-Seq	GEO Accession: GSM2577008	SRR5445761	GSM2577008_r1	NA	19279981	963999050	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445761.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122617	GSM2577004	NA	source_name: infection with Candida and preincubated with LGGs || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734752	GSM2577004	GSM2577004	GSM2577004: Candida and LGGs_2h_br3 (part 1); Candida albicans; RNA-Seq	GEO Accession: GSM2577004	SRR5445757	GSM2577004_r1	NA	55437142	2771857100	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445757.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122616	GSM2577003	NA	source_name: infection with Candida and preincubated with LGGs || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734751	GSM2577003	GSM2577003	GSM2577003: Candida and LGGs_2h_br2 (part 2); Candida albicans; RNA-Seq	GEO Accession: GSM2577003	SRR5445756	GSM2577003_r1	NA	65092176	3254608800	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445756.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122622	GSM2577010	NA	source_name: infection only with Candida || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734758	GSM2577010	GSM2577010	GSM2577010: Candida_6h_br3 (part 1); Candida albicans; RNA-Seq	GEO Accession: GSM2577010	SRR5445763	GSM2577010_r1	NA	34755729	1737786450	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445763.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122618	GSM2577006	NA	source_name: infection only with Candida || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734754	GSM2577006	GSM2577006	GSM2577006: Candida_6h_br1 (part 1); Candida albicans; RNA-Seq	GEO Accession: GSM2577006	SRR5445759	GSM2577006_r1	NA	29839968	1491998400	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445759.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122607	GSM2576994	NA	source_name: infection only with Candida || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734742	GSM2576994	GSM2576994	GSM2576994: Candida_2h_br1 (part 1); Candida albicans; RNA-Seq	GEO Accession: GSM2576994	SRR5445747	GSM2576994_r1	NA	61735482	3086774100	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445747.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122629	GSM2577017	NA	source_name: infection with Candida and preincubated with LGGs || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734765	GSM2577017	GSM2577017	GSM2577017: Candida and LGGs_6h_br3 (part 2); Candida albicans; RNA-Seq	GEO Accession: GSM2577017	SRR5445770	GSM2577017_r1	NA	72308726	3615436300	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445770.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122610	GSM2576996	NA	source_name: infection only with Candida || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734744	GSM2576996	GSM2576996	GSM2576996: Candida_2h_br2 (part 1); Candida albicans; RNA-Seq	GEO Accession: GSM2576996	SRR5445749	GSM2576996_r1	NA	68622760	3431138000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445749.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122615	GSM2577002	NA	source_name: infection with Candida and preincubated with LGGs || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734750	GSM2577002	GSM2577002	GSM2577002: Candida and LGGs_2h_br2 (part 1); Candida albicans; RNA-Seq	GEO Accession: GSM2577002	SRR5445755	GSM2577002_r1	NA	60781304	3039065200	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445755.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122612	GSM2576999	NA	source_name: infection only with Candida || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734747	GSM2576999	GSM2576999	GSM2576999: Candida_2h_br3 (part 2); Candida albicans; RNA-Seq	GEO Accession: GSM2576999	SRR5445752	GSM2576999_r1	NA	69374820	3468741000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445752.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122625	GSM2577012	NA	source_name: infection with Candida and preincubated with LGGs || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734760	GSM2577012	GSM2577012	GSM2577012: Candida and LGGs_6h_br1 (part 1); Candida albicans; RNA-Seq	GEO Accession: GSM2577012	SRR5445765	GSM2577012_r1	NA	27343627	1367181350	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445765.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122619	GSM2577005	NA	source_name: infection with Candida and preincubated with LGGs || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734753	GSM2577005	GSM2577005	GSM2577005: Candida and LGGs_2h_br3 (part 2); Candida albicans; RNA-Seq	GEO Accession: GSM2577005	SRR5445758	GSM2577005_r1	NA	53840095	2692004750	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445758.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122609	GSM2576997	NA	source_name: infection only with Candida || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734745	GSM2576997	GSM2576997	GSM2576997: Candida_2h_br2 (part 2); Candida albicans; RNA-Seq	GEO Accession: GSM2576997	SRR5445750	GSM2576997_r1	NA	73973579	3698678950	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445750.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122630	GSM2577015	NA	source_name: infection with Candida and preincubated with LGGs || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734763	GSM2577015	GSM2577015	GSM2577015: Candida and LGGs_6h_br2 (part 2); Candida albicans; RNA-Seq	GEO Accession: GSM2577015	SRR5445768	GSM2577015_r1	NA	31994177	1599708850	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445768.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122614	GSM2577001	NA	source_name: infection with Candida and preincubated with LGGs || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734749	GSM2577001	GSM2577001	GSM2577001: Candida and LGGs_2h_br1 (part 2); Candida albicans; RNA-Seq	GEO Accession: GSM2577001	SRR5445754	GSM2577001_r1	NA	49744570	2487228500	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445754.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122608	GSM2576995	NA	source_name: infection only with Candida || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734743	GSM2576995	GSM2576995	GSM2576995: Candida_2h_br1 (part 2); Candida albicans; RNA-Seq	GEO Accession: GSM2576995	SRR5445748	GSM2576995_r1	NA	56793878	2839693900	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445748.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122613	GSM2577000	NA	source_name: infection with Candida and preincubated with LGGs || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734748	GSM2577000	GSM2577000	GSM2577000: Candida and LGGs_2h_br1 (part 1); Candida albicans; RNA-Seq	GEO Accession: GSM2577000	SRR5445753	GSM2577000_r1	NA	54213661	2710683050	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445753.sra	2018
SRA554042	NA	2017-09-14	2018-05-24T18:09:52Z	SRP103869	GSE97755	GSE97755	Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion	Transcriptome Analysis	Candida albicans is an inhabitant of mucosal surfaces in healthy humans but also the most common cause of fungal nosocomial blood stream infections, associated with high morbidity and mortality. As such life-threatening infections often disseminate from superficial mucosal infections we aimed to study the use of probiotic Lactobacillus rhamnosus GG (LGG) in prevention of mucosal C. albicans infections.   Here, we demonstrate that LGG protects oral epithelial tissue from damage caused by C. albicans in our in vitro model of oral candidiasis. Furthermore, we provide insights into the mechanisms behind this protection and dissect direct and indirect effects of LGG on C. albicans pathogenicity. C. albicans viability was not affected by LGG. Instead, transcriptional profiling using RNA-Seq indicated dramatic metabolic reprogramming of C. albicans. Additionally, LGG had a significant impact on major virulence attributes, including adhesion, invasion, and hyphal extension, whose reduction, consequently, prevented epithelial damage. This was accompanied by glucose depletion and repression of ergosterol synthesis, caused by LGG, but also due to blocked adhesion sites. Therefore, LGG protects oral epithelia against C. albicans infection by preventing fungal adhesion, invasion and damage, driven, at least in parts, by metabolic reprogramming due to nutrient limitation caused by LGG. Overall design: Host pathogen interaction study with probiotic strain	GSE97755	NA	NA	NA	NA	SRS2122626	GSM2577013	NA	source_name: infection with Candida and preincubated with LGGs || strain: SC5314 || tissue: hyphae	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Samples of TR146 monolayers for RNA-Seq analysis were collected 2 h and 6 h after infection with Candida. Cells were scrapped into 1 ml chilled PBS and frozen as beads by dropping this suspension into liquid nitrogen. Disruption was carried out using a Mixer Mill MM 200 (RETSCH, Germany) with a shaking frequency of 30/s under cryo conditions. The resulting powder was resuspended in lysis buffer RLTplus (QIAGEN, Germany), supplemented with 0.01% v/v of ß-mercaptoethanol. The extraction of total RNA was performed according to QIAGEN’s Mechanical Disruption Protocol for the isolation of total RNA from yeast, using the RNeasy Plus Mini Kit. The experiments were performed in triplicates. RNA quality and quantity was evaluated using an Agilent 2100 Bioanalyzer with RNA 6000 Nano Chips, following the manufacturer’s protocol. cDNA libraries were prepared using an initial amount of 500 ng of total RNA and Illumina’s TruSeqTM RNA Sample Preparation v2 protocol.	FALSE	NA	SRX2734761	GSM2577013	GSM2577013	GSM2577013: Candida and LGGs_6h_br1 (part 2); Candida albicans; RNA-Seq	GEO Accession: GSM2577013	SRR5445766	GSM2577013_r1	NA	28036784	1401839200	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5445766.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260403	GSM2652021	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPD || treatment: Butyric acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892640	GSM2652021	GSM2652021	GSM2652021: SC5314_YPD_Butyric_3; Candida albicans; RNA-Seq	GEO Accession: GSM2652021	SRR5656041	GSM2652021_r1	NA	7735374	773537400	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656041.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260396	GSM2652014	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPD || treatment: None	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892633	GSM2652014	GSM2652014	GSM2652014: Mig1_YPD_None_2; Candida albicans; RNA-Seq	GEO Accession: GSM2652014	SRR5656034	GSM2652014_r1	NA	9353782	935378200	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656034.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260387	GSM2652005	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPM || treatment: None	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892624	GSM2652005	GSM2652005	GSM2652005: Mig1_YPM_None_1; Candida albicans; RNA-Seq	GEO Accession: GSM2652005	SRR5656025	GSM2652005_r1	NA	8570059	857005900	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656025.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260397	GSM2652015	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPD || treatment: Butyric acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892634	GSM2652015	GSM2652015	GSM2652015: Mig1_YPD_Butyric_2; Candida albicans; RNA-Seq	GEO Accession: GSM2652015	SRR5656035	GSM2652015_r1	NA	7369280	736928000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656035.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260417	GSM2652035	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPM || treatment: None	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892654	GSM2652035	GSM2652035	GSM2652035: SC5314_YPM_None_4; Candida albicans; RNA-Seq	GEO Accession: GSM2652035	SRR5656055	GSM2652035_r1	NA	7651117	765111700	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656055.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260399	GSM2652017	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPM || treatment: None	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892636	GSM2652017	GSM2652017	GSM2652017: Mig1_YPM_None_2; Candida albicans; RNA-Seq	GEO Accession: GSM2652017	SRR5656037	GSM2652017_r1	NA	8161075	816107500	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656037.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260409	GSM2652027	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPD || treatment: Butyric acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892646	GSM2652027	GSM2652027	GSM2652027: Mig1_YPD_Butyric_3; Candida albicans; RNA-Seq	GEO Accession: GSM2652027	SRR5656047	GSM2652027_r1	NA	7822218	782221800	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656047.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260395	GSM2652013	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPM || treatment: Acetic acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892632	GSM2652013	GSM2652013	GSM2652013: SC5314_YPM_Acetic_2; Candida albicans; RNA-Seq	GEO Accession: GSM2652013	SRR5656033	GSM2652013_r1	NA	7922328	792232800	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656033.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260385	GSM2652002	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPD || treatment: None	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892621	GSM2652002	GSM2652002	GSM2652002: Mig1_YPD_None_1; Candida albicans; RNA-Seq	GEO Accession: GSM2652002	SRR5656022	GSM2652002_r1	NA	9274423	927442300	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656022.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260420	GSM2652038	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPD || treatment: None	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892657	GSM2652038	GSM2652038	GSM2652038: Mig1_YPD_None_4; Candida albicans; RNA-Seq	GEO Accession: GSM2652038	SRR5656058	GSM2652038_r1	NA	9322672	932267200	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656058.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260381	GSM2651998	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPD || treatment: Acetic acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892617	GSM2651998	GSM2651998	GSM2651998: SC5314_YPD_Acetic_1; Candida albicans; RNA-Seq	GEO Accession: GSM2651998	SRR5656018	GSM2651998_r1	NA	7629906	762990600	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656018.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260389	GSM2652007	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPM || treatment: Acetic acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892626	GSM2652007	GSM2652007	GSM2652007: Mig1_YPM_Acetic_1; Candida albicans; RNA-Seq	GEO Accession: GSM2652007	SRR5656027	GSM2652007_r1	NA	7222903	722290300	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656027.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260391	GSM2652009	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPD || treatment: Butyric acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892628	GSM2652009	GSM2652009	GSM2652009: SC5314_YPD_Butyric_2; Candida albicans; RNA-Seq	GEO Accession: GSM2652009	SRR5656029	GSM2652009_r1	NA	9095319	909531900	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656029.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260404	GSM2652022	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPD || treatment: Acetic acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892641	GSM2652022	GSM2652022	GSM2652022: SC5314_YPD_Acetic_3; Candida albicans; RNA-Seq	GEO Accession: GSM2652022	SRR5656042	GSM2652022_r1	NA	8366290	836629000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656042.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260421	GSM2652039	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPD || treatment: Butyric acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892658	GSM2652039	GSM2652039	GSM2652039: Mig1_YPD_Butyric_4; Candida albicans; RNA-Seq	GEO Accession: GSM2652039	SRR5656059	GSM2652039_r1	NA	7116266	711626600	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656059.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260380	GSM2651999	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPM || treatment: None	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892618	GSM2651999	GSM2651999	GSM2651999: SC5314_YPM_None_1; Candida albicans; RNA-Seq	GEO Accession: GSM2651999	SRR5656019	GSM2651999_r1	NA	7052082	705208200	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656019.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260378	GSM2651996	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPD || treatment: None	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892615	GSM2651996	GSM2651996	GSM2651996: SC5314_YPD_None_1; Candida albicans; RNA-Seq	GEO Accession: GSM2651996	SRR5656016	GSM2651996_r1	NA	5478478	547847800	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656016.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260393	GSM2652011	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPM || treatment: None	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892630	GSM2652011	GSM2652011	GSM2652011: SC5314_YPM_None_2; Candida albicans; RNA-Seq	GEO Accession: GSM2652011	SRR5656031	GSM2652011_r1	NA	8770739	877073900	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656031.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260383	GSM2652000	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPM || treatment: Butyric acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892619	GSM2652000	GSM2652000	GSM2652000: SC5314_YPM_Butyric_1; Candida albicans; RNA-Seq	GEO Accession: GSM2652000	SRR5656020	GSM2652000_r1	NA	7538870	753887000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656020.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260394	GSM2652012	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPM || treatment: Butyric acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892631	GSM2652012	GSM2652012	GSM2652012: SC5314_YPM_Butyric_2; Candida albicans; RNA-Seq	GEO Accession: GSM2652012	SRR5656032	GSM2652012_r1	NA	8384790	838479000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656032.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260423	GSM2652041	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPM || treatment: None	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892660	GSM2652041	GSM2652041	GSM2652041: Mig1_YPM_None_4; Candida albicans; RNA-Seq	GEO Accession: GSM2652041	SRR5656061	GSM2652041_r1	NA	7667881	766788100	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656061.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260400	GSM2652018	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPM || treatment: Butyric acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892637	GSM2652018	GSM2652018	GSM2652018: Mig1_YPM_Butyric_2; Candida albicans; RNA-Seq	GEO Accession: GSM2652018	SRR5656038	GSM2652018_r1	NA	8950589	895058900	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656038.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260379	GSM2651997	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPD || treatment: Butyric acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892616	GSM2651997	GSM2651997	GSM2651997: SC5314_YPD_Butyric_1; Candida albicans; RNA-Seq	GEO Accession: GSM2651997	SRR5656017	GSM2651997_r1	NA	9036151	903615100	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656017.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260386	GSM2652004	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPD || treatment: Acetic acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892623	GSM2652004	GSM2652004	GSM2652004: Mig1_YPD_Acetic_1; Candida albicans; RNA-Seq	GEO Accession: GSM2652004	SRR5656024	GSM2652004_r1	NA	7774752	777475200	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656024.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260398	GSM2652016	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPD || treatment: Acetic acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892635	GSM2652016	GSM2652016	GSM2652016: Mig1_YPD_Acetic_2; Candida albicans; RNA-Seq	GEO Accession: GSM2652016	SRR5656036	GSM2652016_r1	NA	8188840	818884000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656036.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260416	GSM2652034	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPD || treatment: Acetic acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892653	GSM2652034	GSM2652034	GSM2652034: SC5314_YPD_Acetic_4; Candida albicans; RNA-Seq	GEO Accession: GSM2652034	SRR5656054	GSM2652034_r1	NA	6925409	692540900	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656054.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260418	GSM2652036	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPM || treatment: Butyric acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892655	GSM2652036	GSM2652036	GSM2652036: SC5314_YPM_Butyric_4; Candida albicans; RNA-Seq	GEO Accession: GSM2652036	SRR5656056	GSM2652036_r1	NA	7936650	793665000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656056.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260414	GSM2652032	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPD || treatment: None	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892651	GSM2652032	GSM2652032	GSM2652032: SC5314_YPD_None_4; Candida albicans; RNA-Seq	GEO Accession: GSM2652032	SRR5656052	GSM2652032_r1	NA	7878123	787812300	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656052.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260392	GSM2652010	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPD || treatment: Acetic acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892629	GSM2652010	GSM2652010	GSM2652010: SC5314_YPD_Acetic_2; Candida albicans; RNA-Seq	GEO Accession: GSM2652010	SRR5656030	GSM2652010_r1	NA	7445471	744547100	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656030.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260402	GSM2652020	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPD || treatment: None	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892639	GSM2652020	GSM2652020	GSM2652020: SC5314_YPD_None_3; Candida albicans; RNA-Seq	GEO Accession: GSM2652020	SRR5656040	GSM2652020_r1	NA	7719072	771907200	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656040.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260401	GSM2652019	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPM || treatment: Acetic acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892638	GSM2652019	GSM2652019	GSM2652019: Mig1_YPM_Acetic_2; Candida albicans; RNA-Seq	GEO Accession: GSM2652019	SRR5656039	GSM2652019_r1	NA	8232015	823201500	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656039.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260390	GSM2652008	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPD || treatment: None	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892627	GSM2652008	GSM2652008	GSM2652008: SC5314_YPD_None_2; Candida albicans; RNA-Seq	GEO Accession: GSM2652008	SRR5656028	GSM2652008_r1	NA	6444489	644448900	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656028.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260411	GSM2652029	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPM || treatment: None	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892648	GSM2652029	GSM2652029	GSM2652029: Mig1_YPM_None_3; Candida albicans; RNA-Seq	GEO Accession: GSM2652029	SRR5656049	GSM2652029_r1	NA	8361132	836113200	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656049.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260384	GSM2652003	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPD || treatment: Butyric acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892622	GSM2652003	GSM2652003	GSM2652003: Mig1_YPD_Butyric_1; Candida albicans; RNA-Seq	GEO Accession: GSM2652003	SRR5656023	GSM2652003_r1	NA	8126398	812639800	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656023.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260422	GSM2652040	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPD || treatment: Acetic acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892659	GSM2652040	GSM2652040	GSM2652040: Mig1_YPD_Acetic_4; Candida albicans; RNA-Seq	GEO Accession: GSM2652040	SRR5656060	GSM2652040_r1	NA	8218953	821895300	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656060.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260413	GSM2652031	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPM || treatment: Acetic acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892650	GSM2652031	GSM2652031	GSM2652031: Mig1_YPM_Acetic_3; Candida albicans; RNA-Seq	GEO Accession: GSM2652031	SRR5656051	GSM2652031_r1	NA	6164472	616447200	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656051.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260412	GSM2652030	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPM || treatment: Butyric acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892649	GSM2652030	GSM2652030	GSM2652030: Mig1_YPM_Butyric_3; Candida albicans; RNA-Seq	GEO Accession: GSM2652030	SRR5656050	GSM2652030_r1	NA	8545419	854541900	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656050.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260407	GSM2652025	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPM || treatment: Acetic acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892644	GSM2652025	GSM2652025	GSM2652025: SC5314_YPM_Acetic_3; Candida albicans; RNA-Seq	GEO Accession: GSM2652025	SRR5656045	GSM2652025_r1	NA	9424497	942449700	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656045.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260406	GSM2652024	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPM || treatment: Butyric acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892643	GSM2652024	GSM2652024	GSM2652024: SC5314_YPM_Butyric_3; Candida albicans; RNA-Seq	GEO Accession: GSM2652024	SRR5656044	GSM2652024_r1	NA	7231640	723164000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656044.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260424	GSM2652042	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPM || treatment: Butyric acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892661	GSM2652042	GSM2652042	GSM2652042: Mig1_YPM_Butyric_4; Candida albicans; RNA-Seq	GEO Accession: GSM2652042	SRR5656062	GSM2652042_r1	NA	8794877	879487700	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656062.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260425	GSM2652043	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPM || treatment: Acetic acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892662	GSM2652043	GSM2652043	GSM2652043: Mig1_YPM_Acetic_4; Candida albicans; RNA-Seq	GEO Accession: GSM2652043	SRR5656063	GSM2652043_r1	NA	8804434	880443400	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656063.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260405	GSM2652023	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPM || treatment: None	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892642	GSM2652023	GSM2652023	GSM2652023: SC5314_YPM_None_3; Candida albicans; RNA-Seq	GEO Accession: GSM2652023	SRR5656043	GSM2652023_r1	NA	7385537	738553700	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656043.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260415	GSM2652033	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPD || treatment: Butyric acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892652	GSM2652033	GSM2652033	GSM2652033: SC5314_YPD_Butyric_4; Candida albicans; RNA-Seq	GEO Accession: GSM2652033	SRR5656053	GSM2652033_r1	NA	8214760	821476000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656053.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260408	GSM2652026	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPD || treatment: None	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892645	GSM2652026	GSM2652026	GSM2652026: Mig1_YPD_None_3; Candida albicans; RNA-Seq	GEO Accession: GSM2652026	SRR5656046	GSM2652026_r1	NA	7756390	775639000	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656046.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260388	GSM2652006	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPM || treatment: Butyric acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892625	GSM2652006	GSM2652006	GSM2652006: Mig1_YPM_Butyric_1; Candida albicans; RNA-Seq	GEO Accession: GSM2652006	SRR5656026	GSM2652006_r1	NA	8762332	876233200	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656026.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260419	GSM2652037	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPM || treatment: Acetic acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892656	GSM2652037	GSM2652037	GSM2652037: SC5314_YPM_Acetic_4; Candida albicans; RNA-Seq	GEO Accession: GSM2652037	SRR5656057	GSM2652037_r1	NA	7811256	781125600	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656057.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260382	GSM2652001	NA	source_name: in vitro culture || strain/genotype: SC5314 || media: YPM || treatment: Acetic acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892620	GSM2652001	GSM2652001	GSM2652001: SC5314_YPM_Acetic_1; Candida albicans; RNA-Seq	GEO Accession: GSM2652001	SRR5656021	GSM2652001_r1	NA	7600163	760016300	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656021.sra	2018
SRA572015	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108757	GSE99767	GSE99767	Transcriptional response of C. albicans to weak organic acids, carbon source and MIG1 inactivation.	Transcriptome Analysis	Candida albicans is a resident fungus of the human intestinal microflora. Commonly isolated at low abundance in healthy people, C. albicans outcompetes local microbiota during candidiasis episodes. Under normal conditions, members of the human gastrointestinal microbiota were shown to keep C. albicans colonization under control. By releasing weak organic acids (WOAs), bacteria are able to moderate yeast growth. This mechanism displayed a synergistic effect in vitro with the absence of glucose in medium of culture, which underline the complex interaction that C. albicans faces in its natural environment. Inactivation of the transcriptional regulator MIG1 in C. albicans results in a lack of sensitivity to this synergistic outcome. To decipher C. albicans transcriptional responses to glucose, WOAs and the role of MIG1, we performed RNA sequencing on four biological replicates exposed to combinations of these 3 parameters. We were able to characterise the i) glucose response, ii) response to acetic and butyric acid, iii) MIG1 regulation of C. albicans and iv) genes responsible for WOAs resistance. We identified a group of 6 genes linked to WOAs sensitivity in a glucose-MIG1-dependent manner and inactivated one of these genes, the putative glucose transporter HGT16, in a SC5314 wild-type background. As expected, the mutant displayed a partial complementation to WOAs resistance in absence of glucose. This result points towards a mechanism of WOAs sensitivity in C. albicans involving membrane transporters which could be exploited to control yeast colonisation in human body niches. Overall design: 48 samples: 2 strains (SC5314 and mig1), 2 media (YPD and YPM), 3 conditions (no acids, acetic acid, butyric acid), 4 replicates (1, 2, 3, 4)	GSE99767	NA	NA	NA	NA	SRS2260410	GSM2652028	NA	source_name: in vitro culture || strain/genotype: mig1delta || media: YPD || treatment: Acetic acid	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2000	Illumina HiSeq 2000	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Centrifugation. Flash frozen in liquid nitrogen. Protocol from Cottier et al., 2015 Illumina protocol	TRUE	NA	SRX2892647	GSM2652028	GSM2652028	GSM2652028: Mig1_YPD_Acetic_3; Candida albicans; RNA-Seq	GEO Accession: GSM2652028	SRR5656048	GSM2652028_r1	NA	9442689	944268900	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5656048.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268258	GSM2663990	NA	source_name: RPMI_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901449	GSM2663990	GSM2663990	GSM2663990: RPMI_solid_37_e; Candida albicans; RNA-Seq	GEO Accession: GSM2663990	SRR5665856	GSM2663990_r2	NA	9636153	973251453	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665856.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268261	GSM2663993	NA	source_name: YPD_liquid_30 || strain: SC5314 || media substrate: liquid || temperature: 30	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901452	GSM2663993	GSM2663993	GSM2663993: YPD_liquid_30_e; Candida albicans; RNA-Seq	GEO Accession: GSM2663993	SRR5665862	GSM2663993_r2	NA	10607478	1071355278	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665862.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268245	GSM2663977	NA	source_name: YPD_solid_30 || strain: SC5314 || media substrate: solid || temperature: 30	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901436	GSM2663977	GSM2663977	GSM2663977: YPD_solid_30_c; Candida albicans; RNA-Seq	GEO Accession: GSM2663977	SRR5665830	GSM2663977_r2	NA	7471601	754631701	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665830.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268268	GSM2664000	NA	source_name: Lees_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901459	GSM2664000	GSM2664000	GSM2664000: Lees_liquid_37_a; Candida albicans; RNA-Seq	GEO Accession: GSM2664000	SRR5665876	GSM2664000_r2	NA	10131202	1023251402	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665876.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268248	GSM2663981	NA	source_name: Spider_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901440	GSM2663981	GSM2663981	GSM2663981: Spider_solid_37_e; Candida albicans; RNA-Seq	GEO Accession: GSM2663981	SRR5665838	GSM2663981_r2	NA	9911279	1001039179	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665838.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268245	GSM2663977	NA	source_name: YPD_solid_30 || strain: SC5314 || media substrate: solid || temperature: 30	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901436	GSM2663977	GSM2663977	GSM2663977: YPD_solid_30_c; Candida albicans; RNA-Seq	GEO Accession: GSM2663977	SRR5665829	GSM2663977_r1	NA	7391622	746553822	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665829.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268264	GSM2663996	NA	source_name: Spider_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901455	GSM2663996	GSM2663996	GSM2663996: Spider_liquid_37_e; Candida albicans; RNA-Seq	GEO Accession: GSM2663996	SRR5665867	GSM2663996_r1	NA	7864663	794330963	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665867.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268269	GSM2664001	NA	source_name: Lees_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901460	GSM2664001	GSM2664001	GSM2664001: Lees_liquid_37_c; Candida albicans; RNA-Seq	GEO Accession: GSM2664001	SRR5665878	GSM2664001_r2	NA	7490554	756545954	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665878.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268267	GSM2663999	NA	source_name: FBS_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901458	GSM2663999	GSM2663999	GSM2663999: FBS_liquid_37_e; Candida albicans; RNA-Seq	GEO Accession: GSM2663999	SRR5665873	GSM2663999_r1	NA	9939689	1003908589	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665873.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268246	GSM2663978	NA	source_name: YPD_solid_30 || strain: SC5314 || media substrate: solid || temperature: 30	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901437	GSM2663978	GSM2663978	GSM2663978: YPD_solid_30_e; Candida albicans; RNA-Seq	GEO Accession: GSM2663978	SRR5665832	GSM2663978_r2	NA	10085449	1018630349	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665832.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268273	GSM2664004	NA	source_name: RPMI_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901463	GSM2664004	GSM2664004	GSM2664004: RPMI_liquid_37_c; Candida albicans; RNA-Seq	GEO Accession: GSM2664004	SRR5665883	GSM2664004_r1	NA	11986631	1210649731	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665883.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268272	GSM2664005	NA	source_name: RPMI_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901464	GSM2664005	GSM2664005	GSM2664005: RPMI_liquid_37_e; Candida albicans; RNA-Seq	GEO Accession: GSM2664005	SRR5665885	GSM2664005_r1	NA	9559644	965524044	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665885.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268271	GSM2664003	NA	source_name: RPMI_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901462	GSM2664003	GSM2664003	GSM2664003: RPMI_liquid_37_a; Candida albicans; RNA-Seq	GEO Accession: GSM2664003	SRR5665882	GSM2664003_r2	NA	8181574	826338974	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665882.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268271	GSM2664003	NA	source_name: RPMI_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901462	GSM2664003	GSM2664003	GSM2664003: RPMI_liquid_37_a; Candida albicans; RNA-Seq	GEO Accession: GSM2664003	SRR5665881	GSM2664003_r1	NA	8000655	808066155	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665881.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268259	GSM2663992	NA	source_name: YPD_liquid_30 || strain: SC5314 || media substrate: liquid || temperature: 30	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901451	GSM2663992	GSM2663992	GSM2663992: YPD_liquid_30_c; Candida albicans; RNA-Seq	GEO Accession: GSM2663992	SRR5665860	GSM2663992_r2	NA	7039747	711014447	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665860.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268273	GSM2664004	NA	source_name: RPMI_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901463	GSM2664004	GSM2664004	GSM2664004: RPMI_liquid_37_c; Candida albicans; RNA-Seq	GEO Accession: GSM2664004	SRR5665884	GSM2664004_r2	NA	12132463	1225378763	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665884.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268269	GSM2664001	NA	source_name: Lees_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901460	GSM2664001	GSM2664001	GSM2664001: Lees_liquid_37_c; Candida albicans; RNA-Seq	GEO Accession: GSM2664001	SRR5665877	GSM2664001_r1	NA	7409866	748396466	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665877.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268257	GSM2663989	NA	source_name: RPMI_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901448	GSM2663989	GSM2663989	GSM2663989: RPMI_solid_37_c; Candida albicans; RNA-Seq	GEO Accession: GSM2663989	SRR5665854	GSM2663989_r2	NA	9209178	930126978	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665854.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268265	GSM2663997	NA	source_name: FBS_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901456	GSM2663997	GSM2663997	GSM2663997: FBS_liquid_37_a; Candida albicans; RNA-Seq	GEO Accession: GSM2663997	SRR5665869	GSM2663997_r1	NA	9810885	990899385	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665869.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268270	GSM2664002	NA	source_name: Lees_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901461	GSM2664002	GSM2664002	GSM2664002: Lees_liquid_37_e; Candida albicans; RNA-Seq	GEO Accession: GSM2664002	SRR5665880	GSM2664002_r2	NA	9468743	956343043	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665880.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268267	GSM2663999	NA	source_name: FBS_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901458	GSM2663999	GSM2663999	GSM2663999: FBS_liquid_37_e; Candida albicans; RNA-Seq	GEO Accession: GSM2663999	SRR5665874	GSM2663999_r2	NA	10052505	1015303005	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665874.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268270	GSM2664002	NA	source_name: Lees_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901461	GSM2664002	GSM2664002	GSM2664002: Lees_liquid_37_e; Candida albicans; RNA-Seq	GEO Accession: GSM2664002	SRR5665879	GSM2664002_r1	NA	9357662	945123862	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665879.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268265	GSM2663997	NA	source_name: FBS_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901456	GSM2663997	GSM2663997	GSM2663997: FBS_liquid_37_a; Candida albicans; RNA-Seq	GEO Accession: GSM2663997	SRR5665870	GSM2663997_r2	NA	10022424	1012264824	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665870.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268244	GSM2663976	NA	source_name: YPD_solid_30 || strain: SC5314 || media substrate: solid || temperature: 30	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901435	GSM2663976	GSM2663976	GSM2663976: YPD_solid_30_a; Candida albicans; RNA-Seq	GEO Accession: GSM2663976	SRR5665828	GSM2663976_r2	NA	8656437	874300137	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665828.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268256	GSM2663988	NA	source_name: RPMI_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901447	GSM2663988	GSM2663988	GSM2663988: RPMI_solid_37_a; Candida albicans; RNA-Seq	GEO Accession: GSM2663988	SRR5665851	GSM2663988_r1	NA	10107768	1020884568	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665851.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268246	GSM2663978	NA	source_name: YPD_solid_30 || strain: SC5314 || media substrate: solid || temperature: 30	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901437	GSM2663978	GSM2663978	GSM2663978: YPD_solid_30_e; Candida albicans; RNA-Seq	GEO Accession: GSM2663978	SRR5665831	GSM2663978_r1	NA	9963694	1006333094	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665831.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268247	GSM2663979	NA	source_name: Spider_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901438	GSM2663979	GSM2663979	GSM2663979: Spider_solid_37_a; Candida albicans; RNA-Seq	GEO Accession: GSM2663979	SRR5665834	GSM2663979_r2	NA	8940319	902972219	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665834.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268253	GSM2663985	NA	source_name: Lees_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901444	GSM2663985	GSM2663985	GSM2663985: Lees_solid_37_a; Candida albicans; RNA-Seq	GEO Accession: GSM2663985	SRR5665845	GSM2663985_r1	NA	9682976	977980576	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665845.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268266	GSM2663998	NA	source_name: FBS_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901457	GSM2663998	GSM2663998	GSM2663998: FBS_liquid_37_c; Candida albicans; RNA-Seq	GEO Accession: GSM2663998	SRR5665872	GSM2663998_r2	NA	7557303	763287603	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665872.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268268	GSM2664000	NA	source_name: Lees_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901459	GSM2664000	GSM2664000	GSM2664000: Lees_liquid_37_a; Candida albicans; RNA-Seq	GEO Accession: GSM2664000	SRR5665875	GSM2664000_r1	NA	9927584	1002685984	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665875.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268272	GSM2664005	NA	source_name: RPMI_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901464	GSM2664005	GSM2664005	GSM2664005: RPMI_liquid_37_e; Candida albicans; RNA-Seq	GEO Accession: GSM2664005	SRR5665886	GSM2664005_r2	NA	9662923	975955223	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665886.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268266	GSM2663998	NA	source_name: FBS_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901457	GSM2663998	GSM2663998	GSM2663998: FBS_liquid_37_c; Candida albicans; RNA-Seq	GEO Accession: GSM2663998	SRR5665871	GSM2663998_r1	NA	7520188	759538988	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665871.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268262	GSM2663994	NA	source_name: Spider_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901453	GSM2663994	GSM2663994	GSM2663994: Spider_liquid_37_a; Candida albicans; RNA-Seq	GEO Accession: GSM2663994	SRR5665864	GSM2663994_r2	NA	10058640	1015922640	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665864.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268259	GSM2663992	NA	source_name: YPD_liquid_30 || strain: SC5314 || media substrate: liquid || temperature: 30	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901451	GSM2663992	GSM2663992	GSM2663992: YPD_liquid_30_c; Candida albicans; RNA-Seq	GEO Accession: GSM2663992	SRR5665859	GSM2663992_r1	NA	6968809	703849709	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665859.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268262	GSM2663994	NA	source_name: Spider_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901453	GSM2663994	GSM2663994	GSM2663994: Spider_liquid_37_a; Candida albicans; RNA-Seq	GEO Accession: GSM2663994	SRR5665863	GSM2663994_r1	NA	9867493	996616793	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665863.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268252	GSM2663984	NA	source_name: FBS_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901443	GSM2663984	GSM2663984	GSM2663984: FBS_solid_37_e; Candida albicans; RNA-Seq	GEO Accession: GSM2663984	SRR5665844	GSM2663984_r2	NA	9754482	985202682	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665844.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268258	GSM2663990	NA	source_name: RPMI_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901449	GSM2663990	GSM2663990	GSM2663990: RPMI_solid_37_e; Candida albicans; RNA-Seq	GEO Accession: GSM2663990	SRR5665855	GSM2663990_r1	NA	9537997	963337697	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665855.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268253	GSM2663985	NA	source_name: Lees_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901444	GSM2663985	GSM2663985	GSM2663985: Lees_solid_37_a; Candida albicans; RNA-Seq	GEO Accession: GSM2663985	SRR5665846	GSM2663985_r2	NA	9894115	999305615	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665846.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268257	GSM2663989	NA	source_name: RPMI_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901448	GSM2663989	GSM2663989	GSM2663989: RPMI_solid_37_c; Candida albicans; RNA-Seq	GEO Accession: GSM2663989	SRR5665853	GSM2663989_r1	NA	9142911	923434011	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665853.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268264	GSM2663996	NA	source_name: Spider_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901455	GSM2663996	GSM2663996	GSM2663996: Spider_liquid_37_e; Candida albicans; RNA-Seq	GEO Accession: GSM2663996	SRR5665868	GSM2663996_r2	NA	7951031	803054131	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665868.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268250	GSM2663982	NA	source_name: FBS_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901441	GSM2663982	GSM2663982	GSM2663982: FBS_solid_37_a; Candida albicans; RNA-Seq	GEO Accession: GSM2663982	SRR5665839	GSM2663982_r1	NA	9532019	962733919	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665839.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268247	GSM2663979	NA	source_name: Spider_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901438	GSM2663979	GSM2663979	GSM2663979: Spider_solid_37_a; Candida albicans; RNA-Seq	GEO Accession: GSM2663979	SRR5665833	GSM2663979_r1	NA	8764623	885226923	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665833.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268249	GSM2663980	NA	source_name: Spider_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901439	GSM2663980	GSM2663980	GSM2663980: Spider_solid_37_c; Candida albicans; RNA-Seq	GEO Accession: GSM2663980	SRR5665836	GSM2663980_r2	NA	8219062	830125262	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665836.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268261	GSM2663993	NA	source_name: YPD_liquid_30 || strain: SC5314 || media substrate: liquid || temperature: 30	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901452	GSM2663993	GSM2663993	GSM2663993: YPD_liquid_30_e; Candida albicans; RNA-Seq	GEO Accession: GSM2663993	SRR5665861	GSM2663993_r1	NA	10488033	1059291333	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665861.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268260	GSM2663991	NA	source_name: YPD_liquid_30 || strain: SC5314 || media substrate: liquid || temperature: 30	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901450	GSM2663991	GSM2663991	GSM2663991: YPD_liquid_30_a; Candida albicans; RNA-Seq	GEO Accession: GSM2663991	SRR5665857	GSM2663991_r1	NA	9418905	951309405	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665857.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268252	GSM2663984	NA	source_name: FBS_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901443	GSM2663984	GSM2663984	GSM2663984: FBS_solid_37_e; Candida albicans; RNA-Seq	GEO Accession: GSM2663984	SRR5665843	GSM2663984_r1	NA	9637283	973365583	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665843.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268260	GSM2663991	NA	source_name: YPD_liquid_30 || strain: SC5314 || media substrate: liquid || temperature: 30	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901450	GSM2663991	GSM2663991	GSM2663991: YPD_liquid_30_a; Candida albicans; RNA-Seq	GEO Accession: GSM2663991	SRR5665858	GSM2663991_r2	NA	9623092	971932292	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665858.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268251	GSM2663983	NA	source_name: FBS_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901442	GSM2663983	GSM2663983	GSM2663983: FBS_solid_37_c; Candida albicans; RNA-Seq	GEO Accession: GSM2663983	SRR5665841	GSM2663983_r1	NA	10532262	1063758462	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665841.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268254	GSM2663986	NA	source_name: Lees_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901445	GSM2663986	GSM2663986	GSM2663986: Lees_solid_37_c; Candida albicans; RNA-Seq	GEO Accession: GSM2663986	SRR5665847	GSM2663986_r1	NA	7308259	738134159	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665847.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268249	GSM2663980	NA	source_name: Spider_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901439	GSM2663980	GSM2663980	GSM2663980: Spider_solid_37_c; Candida albicans; RNA-Seq	GEO Accession: GSM2663980	SRR5665835	GSM2663980_r1	NA	8123469	820470369	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665835.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268250	GSM2663982	NA	source_name: FBS_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901441	GSM2663982	GSM2663982	GSM2663982: FBS_solid_37_a; Candida albicans; RNA-Seq	GEO Accession: GSM2663982	SRR5665840	GSM2663982_r2	NA	9712483	980960783	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665840.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268263	GSM2663995	NA	source_name: Spider_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901454	GSM2663995	GSM2663995	GSM2663995: Spider_liquid_37_c; Candida albicans; RNA-Seq	GEO Accession: GSM2663995	SRR5665866	GSM2663995_r2	NA	9654350	975089350	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665866.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268244	GSM2663976	NA	source_name: YPD_solid_30 || strain: SC5314 || media substrate: solid || temperature: 30	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901435	GSM2663976	GSM2663976	GSM2663976: YPD_solid_30_a; Candida albicans; RNA-Seq	GEO Accession: GSM2663976	SRR5665827	GSM2663976_r1	NA	8488347	857323047	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665827.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268251	GSM2663983	NA	source_name: FBS_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901442	GSM2663983	GSM2663983	GSM2663983: FBS_solid_37_c; Candida albicans; RNA-Seq	GEO Accession: GSM2663983	SRR5665842	GSM2663983_r2	NA	10658828	1076541628	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665842.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268255	GSM2663987	NA	source_name: Lees_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901446	GSM2663987	GSM2663987	GSM2663987: Lees_solid_37_e; Candida albicans; RNA-Seq	GEO Accession: GSM2663987	SRR5665849	GSM2663987_r1	NA	10357984	1046156384	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665849.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268255	GSM2663987	NA	source_name: Lees_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901446	GSM2663987	GSM2663987	GSM2663987: Lees_solid_37_e; Candida albicans; RNA-Seq	GEO Accession: GSM2663987	SRR5665850	GSM2663987_r2	NA	10473447	1057818147	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665850.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268248	GSM2663981	NA	source_name: Spider_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901440	GSM2663981	GSM2663981	GSM2663981: Spider_solid_37_e; Candida albicans; RNA-Seq	GEO Accession: GSM2663981	SRR5665837	GSM2663981_r1	NA	9784255	988209755	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665837.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268263	GSM2663995	NA	source_name: Spider_liquid_37 || strain: SC5314 || media substrate: liquid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: Cells were harvested by filtration and then frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901454	GSM2663995	GSM2663995	GSM2663995: Spider_liquid_37_c; Candida albicans; RNA-Seq	GEO Accession: GSM2663995	SRR5665865	GSM2663995_r1	NA	9530800	962610800	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665865.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268256	GSM2663988	NA	source_name: RPMI_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901447	GSM2663988	GSM2663988	GSM2663988: RPMI_solid_37_a; Candida albicans; RNA-Seq	GEO Accession: GSM2663988	SRR5665852	GSM2663988_r2	NA	10320824	1042403224	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665852.sra	2018
SRA573436	NA	2017-10-11	2018-05-24T18:09:52Z	SRP108956	GSE99902	GSE99902	Filamentation involves two overlapping, but distinct, programs of filamentation in the pathogenic fungus Candida albicans	Transcriptome Analysis	The ability of the human pathogenic fungus Candida albicans to switch between yeast-like and filamentous forms of growth has long been linked to pathogenesis. Numerous environmental conditions, including growth at high temperatures, nutrient limitation, and exposure to serum, can trigger this morphological switch and are frequently used in in vitro models to identify genes with roles in filamentation. Previous work has suggested that differences exist between the various in vitro models both in the genetic requirements for filamentation and transcriptional responses to distinct filamentation-inducing media. We compared 10 in vitro models for filamentation and found broad genetic and transcriptomic differences between model systems. Methods: Total RNA was extracted from yeast or filamentous cells grown in liquid media or on solid plates. Samples were tested in biological triplicates. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit (Illumina, San Diego).  Libraries were diluted to a concentration of 6.0 picomoles and sequenced on a HiSeq2500 and 100 bp single reads were generated. Two lanes were used for each sample. Overall design: Total RNA profiles of Candida albicans cells grown for 3 hours in inducing and non-inducing solid and liquid media were generated in triplicate on an Illumina HiSeq2500.	GSE99902	NA	NA	NA	NA	SRS2268254	GSM2663986	NA	source_name: Lees_solid_37 || strain: SC5314 || media substrate: solid || temperature: 37	5476	SC5314	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	cell harvesting: 2 ml of sterile, autoclaved nanopure water was added to the top of the agar plate. A sterile, disposable cell scraper was scraped across the surface of the plates to liberate cells from the agar surface and to collect the water/cell slurry at a collection point on the plate. The water/cell slurry was pipetted into microcentrifuge tubes and quickly spun down at full speed in a microcentrifuge. The supernatant was poured off and the cell pellets were frozen at -80˚C. RNA was collected from frozen cell pellets using the RNeasy kit (Qiagen) with minor modifications. Cell pellets were resuspended in the supplied resuspension buffer with 10 µl/ml beta-mecaptoethanol and moved to a 2 ml screw-cap tube. Cells were mechanically disrupted using 450 nm glass beads in a mini-bead beater (RPI), with three 1-minute bead beating pulses and 2 minute rests. The resulting supernatant was cleared of cell debris and RNA was precipitated with 70% EtOH. The cell supernatant/EtOH mix was placed into the purification column, washed, and eluted with 100 µl nuclease-free water. Residual genomic DNA was removed from the RNA samples during washing using a Qiagen RNase-free DNase on-column removal kit. RNASeq libraries were generated beginning with 1.8 ng of total RNA following standardized protocols with the TruSeq RNA v2 kit	FALSE	NA	SRX2901445	GSM2663986	GSM2663986	GSM2663986: Lees_solid_37_c; Candida albicans; RNA-Seq	GEO Accession: GSM2663986	SRR5665848	GSM2663986_r2	NA	7372988	744671788	/nfs/ex7/work/momeara/ca_coexp/sra_80601/SRR5665848.sra	2018
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875965	SAMEA104216947	NA	Alias: E-MTAB-5990:21_2 || Broker name: ArrayExpress || Description: Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA. || ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875965 || Sample Name: ERS1875965 || Title: 21_2 || genotype: wild type genotype || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 2 || strain: JC50	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	21_2_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155448	E-MTAB-5990:21_2_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: wild type genotype || Experimental Factor: compound: DPTA NONOate || Experimental Factor: dose: 2.5	ERR2098096	E-MTAB-5990:21_2	Carmen Herrero de Dios	8950615	920832784	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098096/ERR2098096.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875960	SAMEA104216942	NA	ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875960 || Sample Name: ERS1875960 || alias: E-MTAB-5990:26_2 || broker name: ArrayExpress || genotype: Hog1 deletion || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 2 || strain: JC50 || title: 26_2	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	26_2_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155443	E-MTAB-5990:26_2_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: Hog1 deletion || Experimental Factor: compound: DPTA NONOate || Experimental Factor: dose: 2.5	ERR2098091	E-MTAB-5990:26_2	Carmen Herrero de Dios	6201359	680209284	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098091/ERR2098091.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875956	SAMEA104216938	NA	Alias: E-MTAB-5990:23_2 || Broker name: ArrayExpress || Description: Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA. || ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875956 || Sample Name: ERS1875956 || Title: 23_2 || genotype: Hog1 deletion || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 2 || strain: JC50	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	23_2_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155439	E-MTAB-5990:23_2_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: Hog1 deletion || Experimental Factor: compound: none	ERR2098087	E-MTAB-5990:23_2	Carmen Herrero de Dios	5859503	640142368	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098087/ERR2098087.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875959	SAMEA104216941	NA	ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875959 || Sample Name: ERS1875959 || alias: E-MTAB-5990:22_2 || broker name: ArrayExpress || genotype: Hog1 deletion || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 2 || strain: JC50 || title: 22_2	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	22_2_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155442	E-MTAB-5990:22_2_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: Hog1 deletion || Experimental Factor: compound: DPTA NONOate || Experimental Factor: dose: 2.5	ERR2098090	E-MTAB-5990:22_2	Carmen Herrero de Dios	5330009	666883416	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098090/ERR2098090.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875954	SAMEA104216936	NA	Alias: E-MTAB-5990:25_1 || Broker name: ArrayExpress || Description: Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA. || ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875954 || Sample Name: ERS1875954 || Title: 25_1 || genotype: wild type genotype || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 1 || strain: JC50	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	25_1_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155437	E-MTAB-5990:25_1_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: wild type genotype || Experimental Factor: compound: DPTA NONOate || Experimental Factor: dose: 2.5	ERR2098085	E-MTAB-5990:25_1	Carmen Herrero de Dios	3209742	344618405	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098085/ERR2098085.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875966	SAMEA104216948	NA	Alias: E-MTAB-5990:25_2 || Broker name: ArrayExpress || Description: Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA. || ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:17Z || INSDC status: public || SRA accession: ERS1875966 || Sample Name: ERS1875966 || Title: 25_2 || genotype: wild type genotype || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 2 || strain: JC50	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	25_2_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155449	E-MTAB-5990:25_2_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: wild type genotype || Experimental Factor: compound: DPTA NONOate || Experimental Factor: dose: 2.5	ERR2098097	E-MTAB-5990:25_2	Carmen Herrero de Dios	3009518	318810249	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098097/ERR2098097.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875945	SAMEA104216927	NA	Alias: E-MTAB-5990:27_1 || Broker name: ArrayExpress || Description: Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA. || ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875945 || Sample Name: ERS1875945 || Title: 27_1 || genotype: Hog1 deletion || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 1 || strain: JC50	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	27_1_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155428	E-MTAB-5990:27_1_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: Hog1 deletion || Experimental Factor: compound: none	ERR2098076	E-MTAB-5990:27_1	Carmen Herrero de Dios	5973670	669579026	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098076/ERR2098076.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875947	SAMEA104216929	NA	Alias: E-MTAB-5990:22_1 || Broker name: ArrayExpress || Description: Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA. || ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875947 || Sample Name: ERS1875947 || Title: 22_1 || genotype: Hog1 deletion || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 1 || strain: JC50	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	22_1_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155430	E-MTAB-5990:22_1_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: Hog1 deletion || Experimental Factor: compound: DPTA NONOate || Experimental Factor: dose: 2.5	ERR2098078	E-MTAB-5990:22_1	Carmen Herrero de Dios	5792228	732408125	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098078/ERR2098078.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875948	SAMEA104216930	NA	ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875948 || Sample Name: ERS1875948 || alias: E-MTAB-5990:26_1 || broker name: ArrayExpress || genotype: Hog1 deletion || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 1 || strain: JC50 || title: 26_1	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	26_1_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155431	E-MTAB-5990:26_1_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: Hog1 deletion || Experimental Factor: compound: DPTA NONOate || Experimental Factor: dose: 2.5	ERR2098079	E-MTAB-5990:26_1	Carmen Herrero de Dios	6331980	701024426	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098079/ERR2098079.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875961	SAMEA104216943	NA	Alias: E-MTAB-5990:20_2 || Broker name: ArrayExpress || Description: Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA. || ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875961 || Sample Name: ERS1875961 || Title: 20_2 || genotype: wild type genotype || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 2 || strain: JC50	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	20_2_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155444	E-MTAB-5990:20_2_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: wild type genotype || Experimental Factor: compound: none	ERR2098092	E-MTAB-5990:20_2	Carmen Herrero de Dios	6360631	694686238	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098092/ERR2098092.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875953	SAMEA104216935	NA	ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875953 || Sample Name: ERS1875953 || alias: E-MTAB-5990:21_1 || broker name: ArrayExpress || genotype: wild type genotype || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 1 || strain: JC50 || title: 21_1	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	21_1_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155436	E-MTAB-5990:21_1_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: wild type genotype || Experimental Factor: compound: DPTA NONOate || Experimental Factor: dose: 2.5	ERR2098084	E-MTAB-5990:21_1	Carmen Herrero de Dios	8483578	880845769	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098084/ERR2098084.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875958	SAMEA104216940	NA	ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875958 || Sample Name: ERS1875958 || alias: E-MTAB-5990:18_2 || broker name: ArrayExpress || genotype: Hog1 deletion || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 2 || strain: JC50 || title: 18_2	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	18_2_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155441	E-MTAB-5990:18_2_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: Hog1 deletion || Experimental Factor: compound: DPTA NONOate || Experimental Factor: dose: 2.5	ERR2098089	E-MTAB-5990:18_2	Carmen Herrero de Dios	5990575	680246803	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098089/ERR2098089.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875963	SAMEA104216945	NA	ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875963 || Sample Name: ERS1875963 || alias: E-MTAB-5990:28_2 || broker name: ArrayExpress || genotype: wild type genotype || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 2 || strain: JC50 || title: 28_2	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	28_2_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155446	E-MTAB-5990:28_2_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: wild type genotype || Experimental Factor: compound: none	ERR2098094	E-MTAB-5990:28_2	Carmen Herrero de Dios	4411844	447381542	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098094/ERR2098094.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875957	SAMEA104216939	NA	Alias: E-MTAB-5990:27_2 || Broker name: ArrayExpress || Description: Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA. || ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875957 || Sample Name: ERS1875957 || Title: 27_2 || genotype: Hog1 deletion || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 2 || strain: JC50	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	27_2_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155440	E-MTAB-5990:27_2_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: Hog1 deletion || Experimental Factor: compound: none	ERR2098088	E-MTAB-5990:27_2	Carmen Herrero de Dios	5781013	642439148	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098088/ERR2098088.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875950	SAMEA104216932	NA	Alias: E-MTAB-5990:24_1 || Broker name: ArrayExpress || Description: Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA. || ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875950 || Sample Name: ERS1875950 || Title: 24_1 || genotype: wild type genotype || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 1 || strain: JC50	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	24_1_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155433	E-MTAB-5990:24_1_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: wild type genotype || Experimental Factor: compound: none	ERR2098081	E-MTAB-5990:24_1	Carmen Herrero de Dios	7000905	959270033	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098081/ERR2098081.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875946	SAMEA104216928	NA	Alias: E-MTAB-5990:18_1 || Broker name: ArrayExpress || Description: Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA. || ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875946 || Sample Name: ERS1875946 || Title: 18_1 || genotype: Hog1 deletion || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 1 || strain: JC50	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	18_1_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155429	E-MTAB-5990:18_1_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: Hog1 deletion || Experimental Factor: compound: DPTA NONOate || Experimental Factor: dose: 2.5	ERR2098077	E-MTAB-5990:18_1	Carmen Herrero de Dios	6202966	712412868	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098077/ERR2098077.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875964	SAMEA104216946	NA	ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875964 || Sample Name: ERS1875964 || alias: E-MTAB-5990:17_2 || broker name: ArrayExpress || genotype: wild type genotype || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 2 || strain: JC50 || title: 17_2	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	17_2_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155447	E-MTAB-5990:17_2_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: wild type genotype || Experimental Factor: compound: DPTA NONOate || Experimental Factor: dose: 2.5	ERR2098095	E-MTAB-5990:17_2	Carmen Herrero de Dios	6458969	712092825	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098095/ERR2098095.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875949	SAMEA104216931	NA	ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875949 || Sample Name: ERS1875949 || alias: E-MTAB-5990:20_1 || broker name: ArrayExpress || genotype: wild type genotype || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 1 || strain: JC50 || title: 20_1	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	20_1_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155432	E-MTAB-5990:20_1_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: wild type genotype || Experimental Factor: compound: none	ERR2098080	E-MTAB-5990:20_1	Carmen Herrero de Dios	6978885	770022954	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098080/ERR2098080.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875962	SAMEA104216944	NA	Alias: E-MTAB-5990:24_2 || Broker name: ArrayExpress || Description: Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA. || ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875962 || Sample Name: ERS1875962 || Title: 24_2 || genotype: wild type genotype || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 2 || strain: JC50	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	24_2_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155445	E-MTAB-5990:24_2_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: wild type genotype || Experimental Factor: compound: none	ERR2098093	E-MTAB-5990:24_2	Carmen Herrero de Dios	6681211	905488888	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098093/ERR2098093.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875943	SAMEA104216925	NA	Alias: E-MTAB-5990:19_1 || Broker name: ArrayExpress || Description: Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA. || ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875943 || Sample Name: ERS1875943 || Title: 19_1 || genotype: Hog1 deletion || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 1 || strain: JC50	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	19_1_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155426	E-MTAB-5990:19_1_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: Hog1 deletion || Experimental Factor: compound: none	ERR2098074	E-MTAB-5990:19_1	Carmen Herrero de Dios	5815604	739288690	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098074/ERR2098074.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875944	SAMEA104216926	NA	Alias: E-MTAB-5990:23_1 || Broker name: ArrayExpress || Description: Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA. || ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875944 || Sample Name: ERS1875944 || Title: 23_1 || genotype: Hog1 deletion || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 1 || strain: JC50	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	23_1_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155427	E-MTAB-5990:23_1_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: Hog1 deletion || Experimental Factor: compound: none	ERR2098075	E-MTAB-5990:23_1	Carmen Herrero de Dios	6150180	679604900	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098075/ERR2098075.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875952	SAMEA104216934	NA	ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875952 || Sample Name: ERS1875952 || alias: E-MTAB-5990:17_1 || broker name: ArrayExpress || genotype: wild type genotype || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 1 || strain: JC50 || title: 17_1	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	17_1_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155435	E-MTAB-5990:17_1_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: wild type genotype || Experimental Factor: compound: DPTA NONOate || Experimental Factor: dose: 2.5	ERR2098083	E-MTAB-5990:17_1	Carmen Herrero de Dios	6177387	689163058	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098083/ERR2098083.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875951	SAMEA104216933	NA	Alias: E-MTAB-5990:28_1 || Broker name: ArrayExpress || Description: Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA. || ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875951 || Sample Name: ERS1875951 || Title: 28_1 || genotype: wild type genotype || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 1 || strain: JC50	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	28_1_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155434	E-MTAB-5990:28_1_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: wild type genotype || Experimental Factor: compound: none	ERR2098082	E-MTAB-5990:28_1	Carmen Herrero de Dios	4959287	508144407	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098082/ERR2098082.sra	2020
ERA990549	European Nucleotide Archive	2020-03-12	2020-09-24T10:57:18Z	ERP024550	E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Transcriptome Analysis	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	NA	RNA sequencing was performed on Candida albicans wild type cells (JC50) grown to exponential phase on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate, and compared to exponential Candida albicans hog1 deletion mutant cells grown on  on YPD , YPD plus Nitrosative Stress 2.5mM DPTA NONOate. Three independent experiments were performed.	ENA-FIRST-PUBLIC: 2018-03-03 || ENA-LAST-UPDATE: 2017-08-17 || ArrayExpress: E-MTAB-5990	NA	Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	ERS1875955	SAMEA104216937	NA	Alias: E-MTAB-5990:19_2 || Broker name: ArrayExpress || Description: Protocols: JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls. RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8). The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA. || ENA checklist: ERC000011 || INSDC center alias: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC center name: Centre for Genome Enabled Biology and Medicine, University of Aberdeen || INSDC first public: 2018-03-03T17:03:05Z || INSDC last update: 2017-08-17T10:42:16Z || INSDC status: public || SRA accession: ERS1875955 || Sample Name: ERS1875955 || Title: 19_2 || genotype: Hog1 deletion || growth condition: YPD || organism: Candida albicans || replicate: Sequencing Run 2 || strain: JC50	5476	JC50	ION_TORRENT	INSTRUMENT_MODEL: Ion Torrent Proton	Ion Torrent Proton	19_2_s	RNA-Seq	TRANSCRIPTOMIC	Inverse rRNA	SINGLE -	JC50 background strain Cells were incubated overnight in 5 ml volumes in the indicated conditions and transferred to fresh medium in 50 mL culture flasks for 4 hours (30C, 200 rpm) to an OD600 = 0.6. Half of the samples were treated with 2.5 mM DPTA NONOate. The other half of the samples remained no stress controls.  RNA was obtained via Qiazol/chloroform extraction (QIAgen) according to the manufacturer's instructions and assessed for quality by nanodrop. RNA was DNAse treated (TURBO DNAse, Ambion) according to the manufacturer's instructions and assessed for quality by Agilent Bioanalyser (RIN>8).  The sequencing library was prepared with the Ion Total RNA-Seq Kit v2 from Thermo Fisher Scientific (Life Tech) using ribosomal RNA depleted total RNA.	FALSE	NA	ERX2155438	E-MTAB-5990:19_2_s	NA	Ion Torrent Proton sequencing; Contribution of the Hog1 SAPK to nitrosative stress response in Candida albicans.	Experimental Factor: genotype: Hog1 deletion || Experimental Factor: compound: none	ERR2098086	E-MTAB-5990:19_2	Carmen Herrero de Dios	5606544	704954035	/scratch/maom_root/maom99/maom/ca_coexp/sra/ERR2098086/ERR2098086.sra	2020
SRA486981	Vital-IT	2020-04-11	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-His Candida albicans GCN4 mutant rep2	SRS1763912	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	GCN4 mutant YNB-His rep2	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2272824	C72	NA	RNA-seq of C.albicans: GCN4 mutant YNB-His rep2	NA	SRR4456858	C72	NA	44048413	4448889713	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4456858/SRR4456858.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-His+3AT Candida albicans SC5314 rep3	SRS1763916	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SC5314 YNB-His+3AT rep3	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2272828	C76	NA	RNA-seq of C.albicans: SC5314 YNB-His+3AT rep3	NA	SRR4456863	C76	NA	32494370	3281931370	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4456863/SRR4456863.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-CSM Candida albicans MBF1 mutant rep2	SRS1762565	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	MBF1 mutant YNB-CSM rep2	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271464	C60	NA	RNA-seq of C.albicans: MBF1 mutant YNB-CSM rep2	NA	SRR4454985	C60	NA	42013077	4243320777	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454985/SRR4454985.sra	2020
SRA486981	Vital-IT	2020-04-06	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro Candida albicans SC5314 rep2	SRS1760386	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SC5314 in vitro rep2	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2269270	C11_2	NA	RNA-seq of C.albicans: SC5314 in vitro rep2	NA	SRR4451224	C11_2	NA	43187455	4361932955	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4451224/SRR4451224.sra	2020
SRA486981	Vital-IT	2020-04-11	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-His+3AT Candida albicans MBF1 mutant rep3	SRS1763919	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	MBF1 mutant YNB-His+3AT rep3	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2272831	C79	NA	RNA-seq of C.albicans: MBF1 mutant YNB-His+3AT rep3	NA	SRR4456867	C79	NA	30966555	3127622055	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4456867/SRR4456867.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-His Candida albicans GCN4 mutant rep1	SRS1763825	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	GCN4 mutant YNB-His rep1	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2272733	C71	NA	RNA-seq of C.albicans: GCN4 mutant YNB-His rep1	NA	SRR4456805	C71	NA	34497502	3484247702	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4456805/SRR4456805.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro Candida albicans MBF1 mutant rep4	SRS1762237	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	MBF1 mutant in vitro rep4	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271134	C18	NA	RNA-seq of C.albicans: MBF1 mutant in vitro rep4	NA	SRR4454580	C18	NA	39787252	4018512452	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454580/SRR4454580.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro Candida albicans SC5314 rep4	SRS1762233	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SC5314 in vitro rep4	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271130	KC11	NA	RNA-seq of C.albicans: SC5314 in vitro rep4	NA	SRR4454576	KC11	NA	55629185	5618547685	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454576/SRR4454576.sra	2020
SRA486981	Vital-IT	2020-04-06	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-His Candida albicans SC5314 rep2	SRS1763703	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SC5314 YNB-His rep2	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2272599	C66	NA	RNA-seq of C.albicans: SC5314 YNB-His rep2	NA	SRR4456634	C66	NA	33480079	3381487979	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4456634/SRR4456634.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-His+3AT Candida albicans GCN4 mutant rep3	SRS1763923	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	GCN4 mutant YNB-His+3AT rep3	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2272835	C82	NA	RNA-seq of C.albicans: GCN4 mutant YNB-His+3AT rep3	NA	SRR4456871	C82	NA	31960030	3227963030	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4456871/SRR4456871.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	infected mouse Candida albicans SC5314 rep3	SRS1762242	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SC5314 infected mouse rep3	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271138	K37	NA	RNA-seq of C.albicans: SC5314 infected mouse rep3	NA	SRR4454584	K37	NA	55716754	5627392154	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454584/SRR4454584.sra	2020
SRA486981	Vital-IT	2020-04-06	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	infected mouse Candida albicans MBF1 mutant rep3	SRS1762285	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	MBF1 mutant infected mouse rep3	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271182	K81	NA	RNA-seq of C.albicans: MBF1 mutant infected mouse rep3	NA	SRR4454628	K81	NA	52118597	5263978297	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454628/SRR4454628.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-His Candida albicans MBF1 mutant rep1	SRS1763704	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	MBF1 mutant YNB-His rep1	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2272601	C68	NA	RNA-seq of C.albicans: MBF1 mutant YNB-His rep1	NA	SRR4456636	C68	NA	35046316	3539677916	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4456636/SRR4456636.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-His+3AT Candida albicans SC5314 rep2	SRS1763915	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SC5314 YNB-His+3AT rep2	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2272827	C75	NA	RNA-seq of C.albicans: SC5314 YNB-His+3AT rep2	NA	SRR4456862	C75	NA	40017537	4041771237	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4456862/SRR4456862.sra	2020
SRA486981	Vital-IT	2020-04-09	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	infected mouse Candida albicans MBF1 mutant rep4	SRS1762286	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	MBF1 mutant infected mouse rep4	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271183	K81D	NA	RNA-seq of C.albicans: MBF1 mutant infected mouse rep4	NA	SRR4454629	K81D	NA	85640114	8649651514	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454629/SRR4454629.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro Candida albicans SC5314 rep1	SRS1760249	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SC5314 in vitro rep1	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2269133	C6_2	NA	RNA-seq of C.albicans: SC5314 in vitro rep1	NA	SRR4451223	C6_2	NA	43623757	4405999457	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4451223/SRR4451223.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	infected mouse Candida albicans SC5314 rep2	SRS1762239	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SC5314 infected mouse rep2	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271136	K26D	NA	RNA-seq of C.albicans: SC5314 infected mouse rep2	NA	SRR4454582	K26D	NA	41487999	4190287899	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454582/SRR4454582.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-His Candida albicans MBF1 mutant rep2	SRS1763705	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	MBF1 mutant YNB-His rep2	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2272602	C69	NA	RNA-seq of C.albicans: MBF1 mutant YNB-His rep2	NA	SRR4456637	C69	NA	40030888	4043119688	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4456637/SRR4456637.sra	2020
SRA486981	Vital-IT	2020-04-10	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	infected mouse Candida albicans SC5314 rep1	SRS1762238	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SC5314 infected mouse rep1	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271135	K26	NA	RNA-seq of C.albicans: SC5314 infected mouse rep1	NA	SRR4454581	K26	NA	67593958	6826989758	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454581/SRR4454581.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-His+3AT Candida albicans MBF1 mutant rep1	SRS1763917	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	MBF1 mutant YNB-His+3AT rep1	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2272829	C77	NA	RNA-seq of C.albicans: MBF1 mutant YNB-His+3AT rep1	NA	SRR4456864	C77	NA	35789992	3614789192	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4456864/SRR4456864.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro Candida albicans MBF1 mutant rep1	SRS1762234	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	MBF1 mutant  in vitro rep1	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271131	C8	NA	RNA-seq of C.albicans: MBF1 mutant in vitro rep1	NA	SRR4454577	C8	NA	39768517	4016620217	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454577/SRR4454577.sra	2020
SRA486981	Vital-IT	2020-04-10	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	infected mouse Candida albicans SC5314 rep4	SRS1762241	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SC5314 infected mouse rep4	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271139	K37D	NA	RNA-seq of C.albicans: SC5314 infected mouse rep4	NA	SRR4454585	K37D	NA	42597881	4302385981	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454585/SRR4454585.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro Candida albicans SC5314 rep3	SRS1762104	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SC5314 in vitro rep3	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271002	GC6	NA	RNA-seq of C.albicans: SC5314 in vitro rep3	NA	SRR4454155	GC6	NA	55441305	5599571805	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454155/SRR4454155.sra	2020
SRA486981	Vital-IT	2020-04-06	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-CSM Candida albicans SC5314 rep1	SRS1762287	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SC5314 YNB-CSM rep1	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271184	C56	NA	RNA-seq of C.albicans: SC5314 YNB-CSM rep1	NA	SRR4454635	C56	NA	36325476	3668873076	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454635/SRR4454635.sra	2020
SRA486981	Vital-IT	2020-04-06	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro Candida albicans MBF1 mutant rep3	SRS1762236	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	MBF1 mutant in vitro rep3	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271133	C12	NA	RNA-seq of C.albicans: MBF1 mutant in vitro rep3	NA	SRR4454579	C12	NA	34166054	3450771454	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454579/SRR4454579.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-His Candida albicans GCN4 mutant rep3	SRS1763913	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	GCN4 mutant YNB-His rep3	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2272825	C73	NA	RNA-seq of C.albicans: GCN4 mutant YNB-His rep3	NA	SRR4456859	C73	NA	33466548	3380121348	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4456859/SRR4456859.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-His+3AT Candida albicans SC5314 rep1	SRS1763914	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SC5314 YNB-His+3AT rep1	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2272826	C74	NA	RNA-seq of C.albicans: SC5314 YNB-His+3AT rep1	NA	SRR4456861	C74	NA	34338090	3468147090	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4456861/SRR4456861.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-CSM Candida albicans GCN4 mutant rep3	SRS1762743	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	GCN4 mutant YNB-CSM rep3	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271640	C64	NA	RNA-seq of C.albicans: GCN4 mutant YNB-CSM rep3	NA	SRR4455089	C64	NA	34321661	3466487761	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4455089/SRR4455089.sra	2020
SRA486981	Vital-IT	2020-04-09	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	infected mouse Candida albicans MBF1 mutant rep2	SRS1762284	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	MBF1 mutant infected mouse rep2	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271181	K41D	NA	RNA-seq of C.albicans: MBF1 mutant infected mouse rep2	NA	SRR4454627	K41D	NA	44165213	4460686513	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454627/SRR4454627.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-His Candida albicans MBF1 mutant rep3	SRS1763708	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	MBF1 mutant YNB-His rep3	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2272606	C70	NA	RNA-seq of C.albicans: MBF1 mutant YNB-His rep3	NA	SRR4456652	C70	NA	33037834	3336821234	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4456652/SRR4456652.sra	2020
SRA486981	Vital-IT	2020-04-06	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-CSM Candida albicans MBF1 mutant rep3	SRS1762739	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	MBF1 mutant YNB-CSM rep3	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271636	C61	NA	RNA-seq of C.albicans: MBF1 mutant YNB-CSM rep3	NA	SRR4455086	C61	NA	33722535	3405976035	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4455086/SRR4455086.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-His Candida albicans SC5314 rep3	SRS1763702	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SC5314 YNB-His rep3	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2272600	C67	NA	RNA-seq of C.albicans: SC5314 YNB-His rep3	NA	SRR4456635	C67	NA	33900676	3423968276	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4456635/SRR4456635.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-CSM Candida albicans GCN4 mutant rep1	SRS1762741	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	GCN4 mutant YNB-CSM rep1	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271638	C62	NA	RNA-seq of C.albicans: GCN4 mutant YNB-CSM rep1	NA	SRR4455087	C62	NA	36245827	3660828527	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4455087/SRR4455087.sra	2020
SRA486981	Vital-IT	2020-04-09	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	infected mouse Candida albicans MBF1 mutant rep1	SRS1762264	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	MBF1 mutant infected mouse rep1	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271161	K41	NA	RNA-seq of C.albicans: MBF1 mutant infected mouse rep1	NA	SRR4454626	K41	NA	34032813	3437314113	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454626/SRR4454626.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-His+3AT Candida albicans MBF1 mutant rep2	SRS1763918	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	MBF1 mutant YNB-His+3AT rep2	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2272830	C78	NA	RNA-seq of C.albicans: MBF1 mutant YNB-His+3AT rep2	NA	SRR4456865	C78	NA	38983573	3937340873	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4456865/SRR4456865.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-His Candida albicans SC5314 rep1	SRS1763701	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SC5314 YNB-His rep1	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2272598	C65	NA	RNA-seq of C.albicans: SC5314 YNB-His rep1	NA	SRR4456633	C65	NA	37730188	3810748988	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4456633/SRR4456633.sra	2020
SRA486981	Vital-IT	2020-04-06	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-CSM Candida albicans MBF1 mutant rep1	SRS1762368	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	MBF1 mutant YNB-CSM rep1	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271265	C59	NA	RNA-seq of C.albicans: MBF1 mutant YNB-CSM rep1	NA	SRR4454770	C59	NA	35530529	3588583429	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454770/SRR4454770.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-CSM Candida albicans SC5314 rep3	SRS1762299	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SC5314 YNB-CSM rep3	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271196	C58	NA	RNA-seq of C.albicans: SC5314 YNB-CSM rep3	NA	SRR4454646	C58	NA	36118633	3647981933	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454646/SRR4454646.sra	2020
SRA486981	Vital-IT	2020-04-06	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-CSM Candida albicans SC5314 rep2	SRS1762298	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	SC5314 YNB-CSM rep2	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271195	C57	NA	RNA-seq of C.albicans: SC5314 YNB-CSM rep2	NA	SRR4454645	C57	NA	37786000	3816386000	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4454645/SRR4454645.sra	2020
SRA486981	Vital-IT	2020-04-06	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-His+3AT Candida albicans GCN4 mutant rep1	SRS1763921	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	GCN4 mutant YNB-His+3AT rep1	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2272833	C80	NA	RNA-seq of C.albicans: GCN4 mutant YNB-His+3AT rep1	NA	SRR4456868	C80	NA	36424284	3678852684	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4456868/SRR4456868.sra	2020
SRA486981	Vital-IT	2020-04-05	2020-09-24T10:57:18Z	SRP092095	PRJNA350368	NA	Candida albicans mutant transcriptome	Other	Study of MBF1 and GCN4 mutants on Candida albicans SC5314	Candida albicans SC5314	NA	NA	NA	in vitro YNB-CSM Candida albicans GCN4 mutant rep2	SRS1762742	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	GCN4 mutant YNB-CSM rep2	RNA-Seq	TRANSCRIPTOMIC	Hybrid Selection	SINGLE -	NA	FALSE	READ_INDEX: 0; READ_CLASS: Application Read; READ_TYPE: Forward; BASE_COORD: 1	SRX2271639	C63	NA	RNA-seq of C.albicans: GCN4 mutant YNB-CSM rep2	NA	SRR4455088	C63	NA	37020270	3739047270	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR4455088/SRR4455088.sra	2020
SRA620998	NA	2020-03-21	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610946	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299730	GSM2823300	GSM2823300	GSM2823300: INHIB_6_rep_2; Candida albicans; RNA-Seq	GEO Accession: GSM2823300	SRR6189701	GSM2823300_r1	NA	5188152	783410952	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189701/SRR6189701.sra	2020
SRA620998	NA	2020-03-22	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610919	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299704	GSM2823274	GSM2823274	GSM2823274: FIL_6_rep_1; Candida albicans; RNA-Seq	GEO Accession: GSM2823274	SRR6189675	GSM2823274_r1	NA	12938425	1856680410	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189675/SRR6189675.sra	2020
SRA620998	NA	2020-03-23	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610924	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299708	GSM2823278	GSM2823278	GSM2823278: INHIB_2_rep_1; Candida albicans; RNA-Seq	GEO Accession: GSM2823278	SRR6189679	GSM2823278_r1	NA	7817791	1121422344	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189679/SRR6189679.sra	2020
SRA620998	NA	2020-03-21	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610921	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299703	GSM2823273	GSM2823273	GSM2823273: FIL_5_rep_1; Candida albicans; RNA-Seq	GEO Accession: GSM2823273	SRR6189674	GSM2823273_r1	NA	8135108	1157647232	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189674/SRR6189674.sra	2020
SRA620998	NA	2020-03-21	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610942	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299727	GSM2823297	GSM2823297	GSM2823297: INHIB_3_rep_2; Candida albicans; RNA-Seq	GEO Accession: GSM2823297	SRR6189698	GSM2823297_r1	NA	6190648	934787848	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189698/SRR6189698.sra	2020
SRA620998	NA	2020-03-20	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610920	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299700	GSM2823270	GSM2823270	GSM2823270: FIL_2_rep_1; Candida albicans; RNA-Seq	GEO Accession: GSM2823270	SRR6189671	GSM2823270_r1	NA	7058422	1012230450	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189671/SRR6189671.sra	2020
SRA620998	NA	2020-03-20	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610923	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299707	GSM2823277	GSM2823277	GSM2823277: INHIB_1_rep_1; Candida albicans; RNA-Seq	GEO Accession: GSM2823277	SRR6189678	GSM2823277_r1	NA	2814874	402367294	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189678/SRR6189678.sra	2020
SRA620998	NA	2020-03-21	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610918	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299699	GSM2823269	GSM2823269	GSM2823269: FIL_1_rep_1; Candida albicans; RNA-Seq	GEO Accession: GSM2823269	SRR6189670	GSM2823269_r1	NA	4478408	640954027	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189670/SRR6189670.sra	2020
SRA620998	NA	2020-03-19	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610945	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299720	GSM2823290	GSM2823290	GSM2823290: FIL_4_rep_2; Candida albicans; RNA-Seq	GEO Accession: GSM2823290	SRR6189691	GSM2823290_r1	NA	6088214	919320314	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189691/SRR6189691.sra	2020
SRA620998	NA	2020-03-19	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610936	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299721	GSM2823291	GSM2823291	GSM2823291: FIL_5_rep_2; Candida albicans; RNA-Seq	GEO Accession: GSM2823291	SRR6189692	GSM2823291_r1	NA	6619501	999544651	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189692/SRR6189692.sra	2020
SRA620998	NA	2020-03-20	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610950	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299712	GSM2823282	GSM2823282	GSM2823282: INHIB_6_rep_1; Candida albicans; RNA-Seq	GEO Accession: GSM2823282	SRR6189683	GSM2823282_r1	NA	5437319	780042783	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189683/SRR6189683.sra	2020
SRA620998	NA	2020-03-23	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610933	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299718	GSM2823288	GSM2823288	GSM2823288: FIL_2_rep_2; Candida albicans; RNA-Seq	GEO Accession: GSM2823288	SRR6189689	GSM2823288_r1	NA	7298589	1102086939	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189689/SRR6189689.sra	2020
SRA620998	NA	2020-03-19	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610926	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299710	GSM2823280	GSM2823280	GSM2823280: INHIB_4_rep_1; Candida albicans; RNA-Seq	GEO Accession: GSM2823280	SRR6189681	GSM2823280_r1	NA	7610050	1094122506	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189681/SRR6189681.sra	2020
SRA620998	NA	2020-03-22	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610937	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299722	GSM2823292	GSM2823292	GSM2823292: FIL_6_rep_2; Candida albicans; RNA-Seq	GEO Accession: GSM2823292	SRR6189693	GSM2823292_r1	NA	5967751	901130401	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189693/SRR6189693.sra	2020
SRA620998	NA	2020-03-19	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610949	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299702	GSM2823272	GSM2823272	GSM2823272: FIL_4_rep_1; Candida albicans; RNA-Seq	GEO Accession: GSM2823272	SRR6189673	GSM2823272_r1	NA	9689504	1382742138	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189673/SRR6189673.sra	2020
SRA620998	NA	2020-03-20	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610940	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299725	GSM2823295	GSM2823295	GSM2823295: INHIB_1_rep_2; Candida albicans; RNA-Seq	GEO Accession: GSM2823295	SRR6189696	GSM2823295_r1	NA	5288344	798539944	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189696/SRR6189696.sra	2020
SRA620998	NA	2020-03-21	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610927	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299709	GSM2823279	GSM2823279	GSM2823279: INHIB_3_rep_1; Candida albicans; RNA-Seq	GEO Accession: GSM2823279	SRR6189680	GSM2823279_r1	NA	8499069	1224378444	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189680/SRR6189680.sra	2020
SRA620998	NA	2020-03-20	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610916	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299697	GSM2823267	GSM2823267	GSM2823267: YPD_R1_rep_1; Candida albicans; RNA-Seq	GEO Accession: GSM2823267	SRR6189668	GSM2823267_r1	NA	9609256	1381838462	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189668/SRR6189668.sra	2020
SRA620998	NA	2020-03-19	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610930	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299716	GSM2823286	GSM2823286	GSM2823286: YPD_R2_rep_2; Candida albicans; RNA-Seq	GEO Accession: GSM2823286	SRR6189687	GSM2823286_r1	NA	5185824	783059424	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189687/SRR6189687.sra	2020
SRA620998	NA	2020-03-26	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610917	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299701	GSM2823271	GSM2823271	GSM2823271: FIL_3_rep_1; Candida albicans; RNA-Seq	GEO Accession: GSM2823271	SRR6189672	GSM2823271_r1	NA	5883473	840859189	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189672/SRR6189672.sra	2020
SRA620998	NA	2020-03-21	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610932	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299717	GSM2823287	GSM2823287	GSM2823287: FIL_1_rep_2; Candida albicans; RNA-Seq	GEO Accession: GSM2823287	SRR6189688	GSM2823287_r1	NA	5821484	879044084	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189688/SRR6189688.sra	2020
SRA620998	NA	2020-03-20	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610935	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299719	GSM2823289	GSM2823289	GSM2823289: FIL_3_rep_2; Candida albicans; RNA-Seq	GEO Accession: GSM2823289	SRR6189690	GSM2823289_r1	NA	6203641	936749791	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189690/SRR6189690.sra	2020
SRA620998	NA	2020-03-19	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610943	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299729	GSM2823299	GSM2823299	GSM2823299: INHIB_5_rep_2; Candida albicans; RNA-Seq	GEO Accession: GSM2823299	SRR6189700	GSM2823299_r1	NA	7569731	1143029381	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189700/SRR6189700.sra	2020
SRA620998	NA	2020-03-19	2020-09-24T10:57:18Z	SRP120479	GSE105148	GSE105148	A metabolic checkpoint controls hyphal development in Candida albicans via nitric oxide signaling	Transcriptome Analysis	We investigated the roles of mitochondrial dynamics in hyphal growth of C. albicans using the small molecule inhibitor MDIVI-1. Strikingly, the small molecule inhibitor represses both the yeast-to hyphae transition and ongoing filamentation, and its effects on morphogenesis can be uncoupled from general growth inhibition. RNAseq experiments of inhibitor-treated cells coupled with Candida mutant analyses suggest the existence of a novel mechanism of action to represses hyphal growth. The inhibitor was protective to host cells, increasing the survival of bone-marrow derived macrophages in ex vivo macrophage-Candida infection assays, suggesting it has potential as a therapeutic. Overall design: Analysis of RNA-seq  in C. albicans	GSE105148	NA	NA	NA	NA	SRS2610941	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 1500	Illumina HiSeq 1500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	Total Candida RNA was extracted by the hot phenol method.  One microgram of total RNA was used for library preparation by the PAT-seq method (Harrison et al., 2015). Library construction was by the PAT-seq approach (Harrison et al 2015) 9pM of libraries per lane using Illumina c-bot. Illumina protocol 15006165 Rev J, July 2012 1 x 150bp sequencing using Illumina protocol 15035788 Rev A, Oct 2012	FALSE	NA	SRX3299726	GSM2823296	GSM2823296	GSM2823296: INHIB_2_rep_2; Candida albicans; RNA-Seq	GEO Accession: GSM2823296	SRR6189697	GSM2823296_r1	NA	5849651	883297301	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6189697/SRR6189697.sra	2020
SRA622074	NA	2020-03-21	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610644	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304714	GSM2825600	GSM2825600	GSM2825600: RB717white-2; Candida albicans; RNA-Seq	GEO Accession: GSM2825600	SRR6194234	GSM2825600_r1	NA	9876640	503708640	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194234/SRR6194234.sra	2020
SRA622074	NA	2020-03-20	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610667	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304737	GSM2825623	GSM2825623	GSM2825623: CAY7065gray-3; Candida albicans; RNA-Seq	GEO Accession: GSM2825623	SRR6194257	GSM2825623_r1	NA	9127212	465487812	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194257/SRR6194257.sra	2020
SRA622074	NA	2020-03-20	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610648	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304718	GSM2825604	GSM2825604	GSM2825604: CAY7022gray-1; Candida albicans; RNA-Seq	GEO Accession: GSM2825604	SRR6194238	GSM2825604_r1	NA	6625984	337925184	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194238/SRR6194238.sra	2020
SRA622074	NA	2020-03-22	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610638	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304713	GSM2825599	GSM2825599	GSM2825599: RB717white-1; Candida albicans; RNA-Seq	GEO Accession: GSM2825599	SRR6194233	GSM2825599_r1	NA	6070414	309591114	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194233/SRR6194233.sra	2020
SRA622074	NA	2020-03-21	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610649	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304725	GSM2825611	GSM2825611	GSM2825611: CAY7057white-2; Candida albicans; RNA-Seq	GEO Accession: GSM2825611	SRR6194245	GSM2825611_r1	NA	21351731	1088938281	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194245/SRR6194245.sra	2020
SRA622074	NA	2020-03-20	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610646	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304723	GSM2825609	GSM2825609	GSM2825609: CAY7023opaque-3; Candida albicans; RNA-Seq	GEO Accession: GSM2825609	SRR6194243	GSM2825609_r1	NA	5178361	264096411	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194243/SRR6194243.sra	2020
SRA622074	NA	2020-03-19	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610639	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304715	GSM2825601	GSM2825601	GSM2825601: RB717white-3; Candida albicans; RNA-Seq	GEO Accession: GSM2825601	SRR6194235	GSM2825601_r1	NA	1924879	98168829	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194235/SRR6194235.sra	2020
SRA622074	NA	2020-03-20	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610643	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304721	GSM2825607	GSM2825607	GSM2825607: CAY7023opaque-1; Candida albicans; RNA-Seq	GEO Accession: GSM2825607	SRR6194241	GSM2825607_r1	NA	1912432	97534032	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194241/SRR6194241.sra	2020
SRA622074	NA	2020-03-20	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610665	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304741	GSM2825627	GSM2825627	GSM2825627: RB731opaque-1; Candida albicans; RNA-Seq	GEO Accession: GSM2825627	SRR6194261	GSM2825627_r1	NA	8107503	413482653	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194261/SRR6194261.sra	2020
SRA622074	NA	2020-03-23	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610658	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304730	GSM2825616	GSM2825616	GSM2825616: CAY7059opaque-2; Candida albicans; RNA-Seq	GEO Accession: GSM2825616	SRR6194250	GSM2825616_r1	NA	6021265	307084515	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194250/SRR6194250.sra	2020
SRA622074	NA	2020-03-19	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610668	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304743	GSM2825629	GSM2825629	GSM2825629: RB731opaque-3; Candida albicans; RNA-Seq	GEO Accession: GSM2825629	SRR6194263	GSM2825629_r1	NA	4024111	205229661	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194263/SRR6194263.sra	2020
SRA622074	NA	2020-03-21	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610664	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304738	GSM2825624	GSM2825624	GSM2825624: SN78-1; Candida albicans; RNA-Seq	GEO Accession: GSM2825624	SRR6194258	GSM2825624_r1	NA	10981408	560051808	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194258/SRR6194258.sra	2020
SRA622074	NA	2020-03-19	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610655	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304728	GSM2825614	GSM2825614	GSM2825614: CAY7058gray-3; Candida albicans; RNA-Seq	GEO Accession: GSM2825614	SRR6194248	GSM2825614_r1	NA	2198774	112137474	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194248/SRR6194248.sra	2020
SRA622074	NA	2020-03-19	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610662	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304740	GSM2825626	GSM2825626	GSM2825626: SN78-3; Candida albicans; RNA-Seq	GEO Accession: GSM2825626	SRR6194260	GSM2825626_r1	NA	9803407	499973757	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194260/SRR6194260.sra	2020
SRA622074	NA	2020-03-22	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610657	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304731	GSM2825617	GSM2825617	GSM2825617: CAY7059opaque-3; Candida albicans; RNA-Seq	GEO Accession: GSM2825617	SRR6194251	GSM2825617_r1	NA	11569467	590042817	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194251/SRR6194251.sra	2020
SRA622074	NA	2020-03-20	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610641	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304716	GSM2825602	GSM2825602	GSM2825602: CAY7021white-1; Candida albicans; RNA-Seq	GEO Accession: GSM2825602	SRR6194236	GSM2825602_r1	NA	5929616	302410416	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194236/SRR6194236.sra	2020
SRA622074	NA	2020-03-22	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610663	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304739	GSM2825625	GSM2825625	GSM2825625: SN78-2; Candida albicans; RNA-Seq	GEO Accession: GSM2825625	SRR6194259	GSM2825625_r1	NA	11099623	566080773	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194259/SRR6194259.sra	2020
SRA622074	NA	2020-03-21	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610647	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304722	GSM2825608	GSM2825608	GSM2825608: CAY7023opaque-2; Candida albicans; RNA-Seq	GEO Accession: GSM2825608	SRR6194242	GSM2825608_r1	NA	8105944	413403144	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194242/SRR6194242.sra	2020
SRA622074	NA	2020-03-23	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610656	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304733	GSM2825619	GSM2825619	GSM2825619: CAY7064white-2; Candida albicans; RNA-Seq	GEO Accession: GSM2825619	SRR6194253	GSM2825619_r1	NA	4625369	235893819	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194253/SRR6194253.sra	2020
SRA622074	NA	2020-03-20	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610652	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304732	GSM2825618	GSM2825618	GSM2825618: CAY7064white-1; Candida albicans; RNA-Seq	GEO Accession: GSM2825618	SRR6194252	GSM2825618_r1	NA	5865332	299131932	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194252/SRR6194252.sra	2020
SRA622074	NA	2020-03-20	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610651	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304724	GSM2825610	GSM2825610	GSM2825610: CAY7057white-1; Candida albicans; RNA-Seq	GEO Accession: GSM2825610	SRR6194244	GSM2825610_r1	NA	6902634	352034334	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194244/SRR6194244.sra	2020
SRA622074	NA	2020-03-22	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610661	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304736	GSM2825622	GSM2825622	GSM2825622: CAY7065gray-2; Candida albicans; RNA-Seq	GEO Accession: GSM2825622	SRR6194256	GSM2825622_r1	NA	5955160	303713160	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194256/SRR6194256.sra	2020
SRA622074	NA	2020-03-20	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610642	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304719	GSM2825605	GSM2825605	GSM2825605: CAY7022gray-2; Candida albicans; RNA-Seq	GEO Accession: GSM2825605	SRR6194239	GSM2825605_r1	NA	8296204	423106404	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194239/SRR6194239.sra	2020
SRA622074	NA	2020-03-20	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610659	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304734	GSM2825620	GSM2825620	GSM2825620: CAY7064white-3; Candida albicans; RNA-Seq	GEO Accession: GSM2825620	SRR6194254	GSM2825620_r1	NA	5249860	267742860	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194254/SRR6194254.sra	2020
SRA622074	NA	2020-03-21	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610654	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304727	GSM2825613	GSM2825613	GSM2825613: CAY7058gray-2; Candida albicans; RNA-Seq	GEO Accession: GSM2825613	SRR6194247	GSM2825613_r1	NA	3197911	163093461	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194247/SRR6194247.sra	2020
SRA622074	NA	2020-03-19	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610653	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304729	GSM2825615	GSM2825615	GSM2825615: CAY7059opaque-1; Candida albicans; RNA-Seq	GEO Accession: GSM2825615	SRR6194249	GSM2825615_r1	NA	1945405	99215655	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194249/SRR6194249.sra	2020
SRA622074	NA	2020-03-23	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610660	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304735	GSM2825621	GSM2825621	GSM2825621: CAY7065gray-1; Candida albicans; RNA-Seq	GEO Accession: GSM2825621	SRR6194255	GSM2825621_r1	NA	11863453	605036103	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194255/SRR6194255.sra	2020
SRA622074	NA	2020-03-19	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610640	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304717	GSM2825603	GSM2825603	GSM2825603: CAY7021white-3; Candida albicans; RNA-Seq	GEO Accession: GSM2825603	SRR6194237	GSM2825603_r1	NA	14258143	727165293	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194237/SRR6194237.sra	2020
SRA622074	NA	2020-03-22	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610645	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304720	GSM2825606	GSM2825606	GSM2825606: CAY7022gray-3; Candida albicans; RNA-Seq	GEO Accession: GSM2825606	SRR6194240	GSM2825606_r1	NA	8379350	427346850	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194240/SRR6194240.sra	2020
SRA622074	NA	2020-03-21	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610666	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304742	GSM2825628	GSM2825628	GSM2825628: RB731opaque-2; Candida albicans; RNA-Seq	GEO Accession: GSM2825628	SRR6194262	GSM2825628_r1	NA	5265835	268557585	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194262/SRR6194262.sra	2020
SRA622074	NA	2020-03-20	2020-09-24T10:57:18Z	SRP120582	GSE105399	NA	Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans	Transcriptome Analysis	The ability to undergo heritable switching between cell states is well recognized in microbial species.  In the human fungal pathogen Candida albicans, cells can stably exist in several alternative states that show differential interactions with the mammalian host.  Here, we demonstrate that gene dosage of the master transcription factor, Efg1, controls access to distinct cell states in diploid C. albicans cells.  Thus, cells that are hemizygous for EFG1 can stably differentiate into a cell state that is not available to cells with two functional copies of the EFG1 gene.  Strikingly, we reveal that a number of clinical isolates of C. albicans encode polymorphisms that produce a hemizygous EFG1 genotype and that this enables access to the novel cell state.  Furthermore, we show that C. albicans cells in different cell states each exhibit unique interactions with the mammalian host, with consequences for both commensalism and pathogenesis. Overall design: Three biological replicates were performed for each strain-condition.  Controls were included for WT cells in the white and opaque states from an MTL matched a/a strain (matched to strains 7021-7023 and 7057-7059).  SN78 serves as a white control set for 7064 and 7065.	GSE105399	NA	NA	NA	NA	SRS2610650	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina HiSeq 2500	Illumina HiSeq 2500	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE -	The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion). PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.	FALSE	NA	SRX3304726	GSM2825612	GSM2825612	GSM2825612: CAY7058gray-1; Candida albicans; RNA-Seq	GEO Accession: GSM2825612	SRR6194246	GSM2825612_r1	NA	3689272	188152872	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6194246/SRR6194246.sra	2020
SRA665943	NA	2020-04-12	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036546	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783318	GSM3038578	GSM3038578	GSM3038578: InfectedMO_liveCA_t240_1_REPB1; Candida albicans; Mus musculus; RNA-Seq	GEO Accession: GSM3038578	SRR6827224	GSM3038578_r1	NA	3730049	279753675	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827224/SRR6827224.sra	2020
SRA665943	NA	2020-04-11	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036477	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina MiSeq	Illumina MiSeq	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783278	GSM3038538	GSM3038538	GSM3038538: CandidaOnly_t0_repa; Candida albicans; RNA-Seq	GEO Accession: GSM3038538	SRR6827184	GSM3038538_r1	NA	1292210	193831500	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827184/SRR6827184.sra	2020
SRA665943	NA	2020-04-11	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036486	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina MiSeq	Illumina MiSeq	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783288	GSM3038548	GSM3038548	GSM3038548: CandidaOnly_t4_repb; Candida albicans; RNA-Seq	GEO Accession: GSM3038548	SRR6827194	GSM3038548_r1	NA	2262268	339340200	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827194/SRR6827194.sra	2020
SRA665943	NA	2020-04-11	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036479	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina MiSeq	Illumina MiSeq	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783280	GSM3038540	GSM3038540	GSM3038540: CandidaOnly_t0_repc; Candida albicans; RNA-Seq	GEO Accession: GSM3038540	SRR6827186	GSM3038540_r1	NA	1024315	153647250	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827186/SRR6827186.sra	2020
SRA665943	NA	2020-04-13	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036481	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina MiSeq	Illumina MiSeq	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783282	GSM3038542	GSM3038542	GSM3038542: CandidaOnly_t1_repb; Candida albicans; RNA-Seq	GEO Accession: GSM3038542	SRR6827188	GSM3038542_r1	NA	2066114	309917100	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827188/SRR6827188.sra	2020
SRA665943	NA	2020-04-11	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036482	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina MiSeq	Illumina MiSeq	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783283	GSM3038543	GSM3038543	GSM3038543: CandidaOnly_t1_repc; Candida albicans; RNA-Seq	GEO Accession: GSM3038543	SRR6827189	GSM3038543_r1	NA	2342032	351304800	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827189/SRR6827189.sra	2020
SRA665943	NA	2020-04-11	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036531	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783315	GSM3038575	GSM3038575	GSM3038575: InfectedMO_liveCA_t120_REPA1; Candida albicans; Mus musculus; RNA-Seq	GEO Accession: GSM3038575	SRR6827221	GSM3038575_r1	NA	52623690	3946776750	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827221/SRR6827221.sra	2020
SRA665943	NA	2020-04-13	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036507	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783313	GSM3038573	GSM3038573	GSM3038573: InfectedMO_liveCA_t0_REPB1; Candida albicans; Mus musculus; RNA-Seq	GEO Accession: GSM3038573	SRR6827219	GSM3038573_r1	NA	24058647	1804398525	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827219/SRR6827219.sra	2020
SRA665943	NA	2020-04-12	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036492	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783297	GSM3038557	GSM3038557	GSM3038557: Exposed_CA_t120_REPB4; Candida albicans; RNA-Seq	GEO Accession: GSM3038557	SRR6827203	GSM3038557_r1	NA	18745385	1405903875	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827203/SRR6827203.sra	2020
SRA665943	NA	2020-04-12	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036493	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783296	GSM3038556	GSM3038556	GSM3038556: Exposed_CA_t120_REPA4; Candida albicans; RNA-Seq	GEO Accession: GSM3038556	SRR6827202	GSM3038556_r1	NA	8846267	663470025	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827202/SRR6827202.sra	2020
SRA665943	NA	2020-04-13	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036485	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina MiSeq	Illumina MiSeq	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783287	GSM3038547	GSM3038547	GSM3038547: CandidaOnly_t4_repa; Candida albicans; RNA-Seq	GEO Accession: GSM3038547	SRR6827193	GSM3038547_r1	NA	2017779	302666850	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827193/SRR6827193.sra	2020
SRA665943	NA	2020-04-13	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036490	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783293	GSM3038553	GSM3038553	GSM3038553: Exposed_CA_t0_REPA4; Candida albicans; RNA-Seq	GEO Accession: GSM3038553	SRR6827199	GSM3038553_r1	NA	20359973	1526997975	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827199/SRR6827199.sra	2020
SRA665943	NA	2020-04-13	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036483	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina MiSeq	Illumina MiSeq	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783285	GSM3038545	GSM3038545	GSM3038545: CandidaOnly_t2_repb; Candida albicans; RNA-Seq	GEO Accession: GSM3038545	SRR6827191	GSM3038545_r1	NA	1874665	281199750	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827191/SRR6827191.sra	2020
SRA665943	NA	2020-04-16	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036480	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina MiSeq	Illumina MiSeq	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783281	GSM3038541	GSM3038541	GSM3038541: CandidaOnly_t1_repa; Candida albicans; RNA-Seq	GEO Accession: GSM3038541	SRR6827187	GSM3038541_r1	NA	2250100	337515000	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827187/SRR6827187.sra	2020
SRA665943	NA	2020-04-11	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036491	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783294	GSM3038554	GSM3038554	GSM3038554: Exposed_CA_t0_REPB4; Candida albicans; RNA-Seq	GEO Accession: GSM3038554	SRR6827200	GSM3038554_r1	NA	3980317	298523775	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827200/SRR6827200.sra	2020
SRA665943	NA	2020-04-12	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036512	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783317	GSM3038577	GSM3038577	GSM3038577: InfectedMO_liveCA_t240_1_REPA1; Candida albicans; Mus musculus; RNA-Seq	GEO Accession: GSM3038577	SRR6827223	GSM3038577_r1	NA	53219944	3991495800	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827223/SRR6827223.sra	2020
SRA665943	NA	2020-04-12	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036508	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina MiSeq	Illumina MiSeq	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783284	GSM3038544	GSM3038544	GSM3038544: CandidaOnly_t2_repa; Candida albicans; RNA-Seq	GEO Accession: GSM3038544	SRR6827190	GSM3038544_r1	NA	2012911	301936650	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827190/SRR6827190.sra	2020
SRA665943	NA	2020-04-12	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036505	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783311	GSM3038571	GSM3038571	GSM3038571: InfectedMO_liveCA_CA_t60_REPA1; Candida albicans; Mus musculus; RNA-Seq	GEO Accession: GSM3038571	SRR6827217	GSM3038571_r1	NA	1450740	108805500	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827217/SRR6827217.sra	2020
SRA665943	NA	2020-04-11	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036484	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina MiSeq	Illumina MiSeq	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783286	GSM3038546	GSM3038546	GSM3038546: CandidaOnly_t2_repc; Candida albicans; RNA-Seq	GEO Accession: GSM3038546	SRR6827192	GSM3038546_r1	NA	1929784	289467600	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827192/SRR6827192.sra	2020
SRA665943	NA	2020-04-14	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036498	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783302	GSM3038562	GSM3038562	GSM3038562: Exposed_CA_t60_REPA4; Candida albicans; RNA-Seq	GEO Accession: GSM3038562	SRR6827208	GSM3038562_r1	NA	32181217	2413591275	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827208/SRR6827208.sra	2020
SRA665943	NA	2020-04-12	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036499	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783303	GSM3038563	GSM3038563	GSM3038563: Exposed_CA_t60_REPB4; Candida albicans; RNA-Seq	GEO Accession: GSM3038563	SRR6827209	GSM3038563_r1	NA	23304195	1747814625	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827209/SRR6827209.sra	2020
SRA665943	NA	2020-04-12	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036495	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783299	GSM3038559	GSM3038559	GSM3038559: Exposed_CA_t240_1_REPA4; Candida albicans; RNA-Seq	GEO Accession: GSM3038559	SRR6827205	GSM3038559_r1	NA	24261332	1819599900	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827205/SRR6827205.sra	2020
SRA665943	NA	2020-04-12	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036488	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783290	GSM3038550	GSM3038550	GSM3038550: Ct_Unexposed_CA_REPB; Candida albicans; RNA-Seq	GEO Accession: GSM3038550	SRR6827196	GSM3038550_r1	NA	2277309	170798175	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827196/SRR6827196.sra	2020
SRA665943	NA	2020-04-11	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036511	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783316	GSM3038576	GSM3038576	GSM3038576: InfectedMO_liveCA_t120_REPC1; Candida albicans; Mus musculus; RNA-Seq	GEO Accession: GSM3038576	SRR6827222	GSM3038576_r1	NA	34735843	2605188225	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827222/SRR6827222.sra	2020
SRA665943	NA	2020-04-14	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036497	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783301	GSM3038561	GSM3038561	GSM3038561: Exposed_CA_t240_1_REPC4; Candida albicans; RNA-Seq	GEO Accession: GSM3038561	SRR6827207	GSM3038561_r1	NA	14147423	1061056725	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827207/SRR6827207.sra	2020
SRA665943	NA	2020-04-11	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036506	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783312	GSM3038572	GSM3038572	GSM3038572: InfectedMO_liveCA_t0_REPA1; Candida albicans; Mus musculus; RNA-Seq	GEO Accession: GSM3038572	SRR6827218	GSM3038572_r1	NA	30029809	2252235675	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827218/SRR6827218.sra	2020
SRA665943	NA	2020-04-12	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036514	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783320	GSM3038580	GSM3038580	GSM3038580: InfectedMO_liveCA_t60_REPB1; Candida albicans; Mus musculus; RNA-Seq	GEO Accession: GSM3038580	SRR6827226	GSM3038580_r1	NA	1833203	137490225	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827226/SRR6827226.sra	2020
SRA665943	NA	2020-04-11	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036516	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783321	GSM3038581	GSM3038581	GSM3038581: InfectedMO_liveCA_t60_REPC1; Candida albicans; Mus musculus; RNA-Seq	GEO Accession: GSM3038581	SRR6827227	GSM3038581_r1	NA	1805164	135387300	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827227/SRR6827227.sra	2020
SRA665943	NA	2020-04-11	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036478	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: Illumina MiSeq	Illumina MiSeq	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783279	GSM3038539	GSM3038539	GSM3038539: CandidaOnly_t0_repb; Candida albicans; RNA-Seq	GEO Accession: GSM3038539	SRR6827185	GSM3038539_r1	NA	1473589	221038350	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827185/SRR6827185.sra	2020
SRA665943	NA	2020-04-12	2020-09-24T10:57:18Z	SRP134993	GSE111731	GSE111731	Revealing parallel host-pathogen transcriptional dynamics using sorted subpopulations and single, Candida albicans infected macrophages	Other	Purpose: The purpose of this study was to simulataneously examine the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Methods: Membrane stained (Deep Red),primary, bone marrow derived, murine macrophages and Candida albicans expressing GFP and mCherry were exposed to each other over a four hour time course. Samples were collected at 0, 1, 2 and 4 hours and sorted for four infection subpopulations: 1. Macrophages which phagocytosed live C. albicans  (GFP+ /mCherry+ /Deep Red +), 2. Macrophages which phagocytosed dead C. albicans  (GFP- /mCherry+ /Deep Red +), 3. Uninfected macrophages(GFP- /mCherry- /Deep Red +) and 4. Unengulfed C. albicans (GFP+ /mCherry + /Deep Red -). Unexposed controls were also collected for some time points (i.e. macrophages never exposed to C. albicans and C. albicans never exposed to macrophages). Single macrophages infected with live or dead C. albicans were also sorted. Smart-seq2 was used to create libraries for both infection subpopulation and single, infected cell samples that were sequenced on Illumina's Miseqand Nextseq. Basic quality assessment of Illumina reads and sample demultiplexing was done with Picard version 1.107 and Trimmomatic. Samples profiling exclusively the mouse transcriptional response were aligned to the mouse transcriptome generated from the v. Dec. 2011 GRCm38/mm10 and a collection of mouse rRNA sequences from the UCSC genome website. Samples profiling exclusively the yeast transcriptional response were aligned to the C. albicans transcriptome strain SC5314 version A21-s02-m09-r10 downloaded from Candida Genome Database. Samples containing both macrophages and C. albicans were aligned to a “composite transcriptome” made by combining the mouse transcriptome and C. albicans transcriptomes described above and alignment was done via BWA (version 0.7.10-r789.) Multi-reads (reads that aligned to both host and pathogen transcripts) were discarded. Then, each host or pathogen sample file were aligned to its corresponding reference using Bowtie2 and RSEM (v.1.2.21). Transcript abundance was estimated using transcripts per million (TPM). For subpopulation samples, TPM was calculated using edgeR, all as implemented in the Trinity package version 2.1.. Genes were considered differentially expressed only if they had a 4-fold change difference (> 4 FC) in TPM values and a false discovery rate below or equal to 0.001 (FDR < 0.001), unless specified otherwise.  For single macrophages infected with C. albicans, samples were aligned to the combined transcriptome as described above and RSEM was used to calculate TPM. Results:  We were able to simultaneously measure the host and fungal pathogen transcriptional profiles of four distinct infection fates during macrophage and Candida albicans interactions Conclusions: Our study represents an analysis of both distinct infection populations of macrophages and fungus. Overall design: stained, primary, bone derived macrophages were exposed to GFP and mCherry expressing C. albicans. Four distinct subpopulations were collected at 0, 1, 2 and 4 hours and gene expression was measured. Single macrophages infected with Candida albicans were also collected and gene expression was measured at 2 and 4 hours	GSE111731	NA	NA	NA	NA	SRS3036548	NA	NA	NA	NA	NA	ILLUMINA	INSTRUMENT_MODEL: NextSeq 550	NextSeq 550	NA	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED -	Subpopulation samples were harvested, collected via FACs, flash frozen on dry ice, and RNA was extracted after bead mill lysis in tubes containg RLT and BME and the Qiagen Rneasy mini kit. Single, C. albicans infected libraries were sorted into wells of a 96 well plate containining RLT and BME, and frozen at -80 utnil cDNA synthesis. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols Smart-seq2 was used to create cDNA, Nextera XT kits were used to make libraries;subpopulation and single infect cells were sequenced on Illumina's Nextseq. Candida only samples were sequenced on Illumina's Miseq	TRUE	NA	SRX3783319	GSM3038579	GSM3038579	GSM3038579: InfectedMO_liveCA_t240_1_REPC1; Candida albicans; Mus musculus; RNA-Seq	GEO Accession: GSM3038579	SRR6827225	GSM3038579_r1	NA	47998442	3599883150	/scratch/maom_root/maom99/maom/ca_coexp/sra/SRR6827225/SRR6827225.sra	2020