Datasets:
liyuesen
/
eccDNA_Atlas_Homo_sapiens

Dataset card Viewer Files Community
Species
stringclasses
2 values
eccDNA type
stringclasses
4 values
eccDNA ID
stringlengths
9
14
Genome version
stringclasses
2 values
Location
stringlengths
13
25
Chr
stringclasses
25 values
Start
float64
1
249M
⌀
End
float64
1.47k
249M
⌀
Health/Disease
stringclasses
2 values
Tissue/Cell line
stringlengths
3
56
Disease Name
stringlengths
7
51
Experiment/Prediction
stringclasses
2 values
Validation Strategies
stringlengths
3
141
Treatment
stringclasses
11 values
Oncogene
stringlengths
2
237
Source
stringlengths
13
295
Library type
stringclasses
9 values
Pubmed ID
stringlengths
7
13
Public Date
stringclasses
25 values
Function/Characteristic of ecDNA
stringlengths
13
494
Remarks
stringlengths
2
2.89k
Homo sapiens
ecDNA
ec_hsa_601
hg19
chr1:13792500-21068775
chr1
13,792,500
21,068,775
Disease
Prostate
Prostate Cancer
Prediction
AmpliconArchitect
Not Available
EPHA2,PADI2
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_602
hg19
chr1:15699326-15728696
chr1
15,699,326
15,728,696
Disease
Esophagus
Esophageal Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_603
hg19
chr1:15763586-15782310
chr1
15,763,586
15,782,310
Disease
Uterine Corpus Endometrial
Uterine Corpus Endometrial Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_604
hg19
chr1:15806113-16786168
chr1
15,806,113
16,786,168
Disease
Uterine Corpus Endometrial
Uterine Corpus Endometrial Cancer
Prediction
AmpliconArchitect
Not Available
EPHA2
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_605
hg19
chr1:16007866-16008301
chr1
16,007,866
16,008,301
Disease
Bladder
Bladder Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:16007866-16008301,chr2:142399707-142600141,chr3:105720990-105721425,chr5:21438056-21638491,chr6:17517660-23913258,chr6:57142891-57363325,chr6:58754152-58794587,chr6:63958039-72550872,chr13:34657172-34657607
Homo sapiens
ecDNA
ec_hsa_606
hg19
chr1:16152995-16688083
chr1
16,152,995
16,688,083
Disease
Stomach
Gastric Cancer
Prediction
AmpliconArchitect
Not Available
EPHA2
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_607
hg19
chr1:16411224-16411820
chr1
16,411,224
16,411,820
Disease
Esophagus
Esophageal Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:695666-716261,chr1:16411224-16411820,chr2:32991485-33241936,chr4:33823405-33864000,chr4:120350550-120391145,chr6:32476766-32517361,chr6:134831238-134851834,chr7:32982634-33053842,chr7:39886375-39926970,chr7:45787730-45812936,chr7:50661787-63116350,chr7:63167917-63168513,chr7:64444705-64675301,chr7:65217646-65388242,chr7:142771616-142792211,chr7:151690230-151690826,chr11:50236231-50256826,chr14:45515747-45516343,chr17:20771647-20792243,chr18:30221408-30222004,chr20:25741621-25782216,chrX:33532824-33533420,chrX:140309373-140329969
Homo sapiens
ecDNA
ec_hsa_608
hg19
chr1:16844253-16844736
chr1
16,844,253
16,844,736
Disease
Breast
Breast Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_609
hg19
chr1:17214157-17234639
chr1
17,214,157
17,234,639
Disease
Breast
Breast Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_610
hg19
chr1:17449191-21980150
chr1
17,449,191
21,980,150
Disease
Esophagus
Esophageal Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_611
hg19
chr1:18846149-24156657
chr1
18,846,149
24,156,657
Disease
Stomach
Gastric Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:18846149-24156657,chr1:246787020-246807527,chr1:247808789-247809297,chr3:127613311-127633818,chr3:177103106-177103614,chr11:71862545-72083052
Homo sapiens
ecDNA
ec_hsa_612
hg19
chr1:20403182-25258705
chr1
20,403,182
25,258,705
Disease
Bladder
Bladder Cancer
Prediction
AmpliconArchitect
Not Available
CNR2,RUNX3
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_613
hg19
chr1:21998155-22028646
chr1
21,998,155
22,028,646
Disease
Esophagus
Esophageal Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_614
hg19
chr1:22414654-25874082
chr1
22,414,654
25,874,082
Disease
Skin
Skin Cancer
Prediction
AmpliconArchitect
Not Available
CNR2,RUNX3
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_615
hg19
chr1:26635794-27271262
chr1
26,635,794
27,271,262
Disease
Uterine Corpus Endometrial
Uterine Corpus Endometrial Cancer
Prediction
AmpliconArchitect
Not Available
LIN28A
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_616
hg19
chr1:27376041-47455694
chr1
27,376,041
47,455,694
Disease
Pancreatic
Pancreatic Cancer
Prediction
AmpliconArchitect
Not Available
CSF3R,EIF3I,FGR,HDAC1,LCK,MPL,MYCL,PTCH2,PTP4A2,SFPQ,TSPAN1,YBX1
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_617
hg19
chr1:27472525-27672960
chr1
27,472,525
27,672,960
Disease
Uterine Corpus Endometrial
Uterine Corpus Endometrial Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_618
hg19
chr1:28515179-28515649
chr1
28,515,179
28,515,649
Disease
Stomach
Gastric Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:28515179-28515649,chr1:168005265-168045735,chr3:75883390-76083859,chr16:81129439-81129909,chr19:11942365-17256059,chr19:18721622-18722092,chr19:19867493-35835001,chr20:26220129-26220599
Homo sapiens
ecDNA
ec_hsa_619
hg19
chr1:29382396-40963710
chr1
29,382,396
40,963,710
Disease
Ovary
Ovarian Cancer
Prediction
AmpliconArchitect
Not Available
CSF3R,EIF3I,HDAC1,LCK,MYCL,PTP4A2,SFPQ
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_620
hg19
chr1:30392886-30532590
chr1
30,392,886
30,532,590
Disease
Breast
Breast Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_621
hg19
chr1:30767184-30767761
chr1
30,767,184
30,767,761
Disease
Esophagus
Esophageal Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:30767184-30767761,chr8:81214273-82247058,chr8:91257262-91257839,chr12:1-2731401,chr12:47767534-48337365,chr12:51000635-52275340,chr12:54608208-54808785,chr12:57395820-58376309,chr12:61422493-72716098,chr16:10027706-10028283,chrX:32006430-49396257,chrX:53485532-53486109
Homo sapiens
ecDNA
ec_hsa_622
hg19
chr1:30767246-30767760
chr1
30,767,246
30,767,760
Disease
Lung
Lung Adenocarcinoma
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:30767246-30767760,chr7:98403155-98403669,chr12:64377098-71534694,chr12:73303582-73304096,chr12:73529857-73739975,chr12:73907360-73907874,chr12:74023492-75394005,chr16:70934819-70935333,chrX:112778901-112779415
Homo sapiens
ecDNA
ec_hsa_623
hg19
chr1:31037172-31487743
chr1
31,037,172
31,487,743
Disease
Uterine Corpus Endometrial
Uterine Corpus Endometrial Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_624
hg19
chr1:31127942-31148448
chr1
31,127,942
31,148,448
Disease
Esophagus
Esophageal Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_625
hg19
chr1:32346140-32546610
chr1
32,346,140
32,546,610
Disease
Stomach
Gastric Cancer
Prediction
AmpliconArchitect
Not Available
PTP4A2
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:32346140-32546610,chr6:43103506-44502845
Homo sapiens
ecDNA
ec_hsa_626
hg19
chr1:32653787-32674226
chr1
32,653,787
32,674,226
Disease
Bladder
Bladder Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_627
hg19
chr1:32783142-46901047
chr1
32,783,142
46,901,047
Disease
Lung
Lung Squamous Cell Cancer
Prediction
AmpliconArchitect
Not Available
CSF3R,HDAC1,MPL,MYCL,PTCH2,SFPQ,TSPAN1,YBX1
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_628
hg19
chr1:33478358-33478999
chr1
33,478,358
33,478,999
Disease
Ovary
Ovarian Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_629
hg19
chr1:33552710-65960008
chr1
33,552,710
65,960,008
Disease
Pancreatic
Pancreatic Cancer
Prediction
AmpliconArchitect
Not Available
CSF3R,JAK1,JUN,MPL,MYCL,PDZK1IP1,PTCH2,SFPQ,STIL,TACSTD2,TAL1,TSPAN1,YBX1
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_630
hg19
chr1:34647198-44152754
chr1
34,647,198
44,152,754
Disease
Ovary
Ovarian Cancer
Prediction
AmpliconArchitect
Not Available
CSF3R,MPL,MYCL,SFPQ,YBX1
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:34647198-44152754,chr2:41367519-50032468,chr9:71604318-71604959,chr16:6198361-6199002,chrX:153684607-153685248
Homo sapiens
ecDNA
ec_hsa_631
hg19
chr1:36797834-41961045
chr1
36,797,834
41,961,045
Disease
Lung
Lung Squamous Cell Cancer
Prediction
AmpliconArchitect
Not Available
CSF3R,MYCL
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:36797834-41961045,chr1:175357630-175358193,chr2:206734357-206734920,chr3:180713923-185143819,chr19:11421421-11421984,chrX:40876887-40877450
Homo sapiens
ecDNA
ec_hsa_632
hg19
chr1:37708221-40644293
chr1
37,708,221
40,644,293
Disease
Lung
Lung Adenocarcinoma
Prediction
AmpliconArchitect
Not Available
MYCL
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:37708221-40644293,chr1:66733354-66733890,chr1:81384790-81425325,chr1:107735484-107736020,chr1:173073983-173074519,chr1:188977378-188977914,chr1:190118940-190119476,chr2:12960431-12960967,chr2:42610980-49099059,chr2:89610185-89610721,chr2:89913349-89913885,chr2:94399158-102936981,chr2:104390242-104390778,chr2:104787900-104788436,chr2:105309265-105349800,chr2:105687170-115223838,chr2:162201075-172541928,chr3:47982983-47983519,chr3:187528141-187528677,chr4:39935603-39936139,chr4:72105102-72105638,chr4:94444098-94444634,chr4:162129435-162129971,chr6:1651965-1652501,chr6:28863224-28863760,chr6:70433234-70433770,chr6:105735745-105736281,chr8:1618880-1819415,chr8:19739271-19739807,chr8:25691135-25691671,chr8:32852460-32852996,chr8:72434817-72435353,chr8:94291196-94291732,chr9:75686019-75686555,chr9:116684106-116684642,chr9:127884974-127885510,chr10:28829788-28830324,chr10:56533704-56534240,chr10:88431756-88432292,chr10:100528192-100528728,chr10:133261069-133261605,chr11:38138873-38139409,chr11:81919769-81920305,chr11:92404463-92404999,chr11:92512100-92512636,chr11:107256366-107256902,chr11:114055828-114056364,chr12:13330763-13331299,chr13:83235377-83235913,chr13:91330798-91331334,chr14:26862268-28076868,chr14:28077966-43705618,chr14:44566488-44567024,chr15:45559584-45560120,chr15:55103463-55103999,chr15:65031035-65031571,chr15:80120089-80120625,chr16:34572125-34772661,chr16:61078730-61079266,chr17:12907061-13637596,chr18:30195555-30196091,chr18:65913723-74688113,chr19:11421466-11422002,chr19:32668347-32668883,chr19:39036859-39037395,chr20:7763157-7763693,chr20:57435863-57436399,chr21:23101219-23141166,chr21:23672953-24092026,chr21:42441349-42441885
Homo sapiens
ecDNA
ec_hsa_633
hg19
chr1:38763603-44243567
chr1
38,763,603
44,243,567
Disease
Esophagus
Esophageal Cancer
Prediction
AmpliconArchitect
Not Available
MPL,MYCL,YBX1
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:38763603-44243567,chr1:48582785-48783245,chr1:60532603-62631489,chr1:115471978-120527361,chr8:108559518-108559979,chr20:33526554-33547015
Homo sapiens
ecDNA
ec_hsa_634
hg19
chr1:38902444-42688486
chr1
38,902,444
42,688,486
Disease
Stomach
Gastric Cancer
Prediction
AmpliconArchitect
Not Available
MYCL
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:38902444-42688486,chr1:113103732-119641693,chr1:119715323-119915842,chr1:120187923-120584861,chr1:121209555-121410075,chr1:144821368-145021887,chr15:101266095-101266615
Homo sapiens
ecDNA
ec_hsa_635
hg19
chr1:39211353-41291973
chr1
39,211,353
41,291,973
Disease
Bladder
Bladder Cancer
Prediction
AmpliconArchitect
Not Available
MYCL
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:39211353-41291973,chr1:48687448-48687873,chr3:75883389-76083813,chr19:28621776-33603217,chr20:26200211-26220636
Homo sapiens
ecDNA
ec_hsa_636
hg19
chr1:39655746-41091463
chr1
39,655,746
41,091,463
Disease
Lung
Lung Squamous Cell Cancer
Prediction
AmpliconArchitect
Not Available
MYCL
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:39655746-41091463,chr1:46837753-46838234,chr1:63299550-63534590,chr3:160262257-160614500,chr3:160677167-160922136,chr3:170255957-185677818,chr3:190181913-194592746,chr3:195662265-198022430,chrY:2844785-2845266
Homo sapiens
ecDNA
ec_hsa_637
hg19
chr1:39716875-39880322
chr1
39,716,875
39,880,322
Disease
Breast
Breast Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_638
hg19
chr1:40013482-40416849
chr1
40,013,482
40,416,849
Disease
Lung
Lung Squamous Cell Cancer
Prediction
AmpliconArchitect
Not Available
MYCL
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_639
hg19
chr1:40157286-40837481
chr1
40,157,286
40,837,481
Disease
Esophagus
Esophageal Cancer
Prediction
AmpliconArchitect
Not Available
MYCL
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:40157286-40837481,chr18:65255422-65275987
Homo sapiens
ecDNA
ec_hsa_640
hg19
chr1:40975788-62781973
chr1
40,975,788
62,781,973
Disease
Ovary
Ovarian Cancer
Prediction
AmpliconArchitect
Not Available
JUN,MPL,PDZK1IP1,PTCH2,STIL,TACSTD2,TAL1,TSPAN1,YBX1
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_641
hg19
chr1:43210328-43210994
chr1
43,210,328
43,210,994
Disease
Colon
Colorectal Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:43210328-43210994,chr2:33041282-33241947,chr3:74801030-74801696,chr3:185172027-185192693,chr7:57283983-57284649,chr7:57597261-57817926,chr7:142003839-142024505,chr15:101250077-101250743,chr20:25785331-25985996,chr20:26195867-62339837,chrX:108648793-108649459
Homo sapiens
ecDNA
ec_hsa_642
hg19
chr1:43860716-44299010
chr1
43,860,716
44,299,010
Disease
Lung
Lung Squamous Cell Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_643
hg19
chr1:44538442-44538948
chr1
44,538,442
44,538,948
Disease
Head and Neck
Head and Neck Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:44538442-44538948,chr4:189177028-189397533,chr8:57554375-57774238,chr8:70950193-71150699,chr8:71843752-72248533,chr18:2369789-5896150,chr18:6838939-6839445,chrGL000220.1:0-161802
Homo sapiens
ecDNA
ec_hsa_644
hg19
chr1:45286341-45286868
chr1
45,286,341
45,286,868
Disease
Lung
Lung Squamous Cell Cancer
Prediction
AmpliconArchitect
Not Available
PTCH2
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_645
hg19
chr1:46837753-46838234
chr1
46,837,753
46,838,234
Disease
Lung
Lung Squamous Cell Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:39655746-41091463,chr1:46837753-46838234,chr1:63299550-63534590,chr3:160262257-160614500,chr3:160677167-160922136,chr3:170255957-185677818,chr3:190181913-194592746,chr3:195662265-198022430,chrY:2844785-2845266,chrGL000220.1:0-161802
Homo sapiens
ecDNA
ec_hsa_646
hg19
chr1:47803799-47804266
chr1
47,803,799
47,804,266
Disease
Uvea
Uveal Melanoma
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:47803799-47804266,chr6:1-48952417,chr8:111982869-112183335,chr16:33328064-33528531,chr22:32928046-32928513,chrX:100442185-100442652
Homo sapiens
ecDNA
ec_hsa_647
hg19
chr1:48582785-48783245
chr1
48,582,785
48,783,245
Disease
Esophagus
Esophageal Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:38763603-44243567,chr1:48582785-48783245,chr1:60532603-62631489,chr1:115471978-120527361,chr8:108559518-108559979,chr20:33526554-33547015
Homo sapiens
ecDNA
ec_hsa_648
hg19
chr1:48687448-48687873
chr1
48,687,448
48,687,873
Disease
Bladder
Bladder Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:39211353-41291973,chr1:48687448-48687873,chr3:75883389-76083813,chr19:28621776-33603217,chr20:26200211-26220636
Homo sapiens
ecDNA
ec_hsa_649
hg19
chr1:49894962-49942028
chr1
49,894,962
49,942,028
Disease
Breast
Breast Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_650
hg19
chr1:52502706-52503222
chr1
52,502,706
52,503,222
Disease
Lung
Lung Adenocarcinoma
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:52502706-52503222,chr10:49315850-49536366,chr10:49542145-50621442,chr10:51712566-51913082
Homo sapiens
ecDNA
ec_hsa_651
hg19
chr1:53262546-53263136
chr1
53,262,546
53,263,136
Disease
Esophagus
Esophageal Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:53262546-53263136,chr1:106632132-106632722,chr2:89068512-89089101,chr2:98170206-98190796,chr2:115306901-124565765,chr4:39127845-39128435,chr5:124951420-124952010,chr6:55407554-55408144,chr8:113923461-113944051,chr9:131458073-131458663,chr13:71428192-71428782,chr16:7341436-7342026,chr21:41889764-41890354,chrGL000212.1:0-142322
Homo sapiens
ecDNA
ec_hsa_652
hg19
chr1:54354897-54555404
chr1
54,354,897
54,555,404
Disease
Stomach
Gastric Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_653
hg19
chr1:54669267-54669775
chr1
54,669,267
54,669,775
Disease
Stomach
Gastric Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_654
hg19
chr1:55024061-55024681
chr1
55,024,061
55,024,681
Disease
Uterine Corpus Endometrial
Uterine Corpus Endometrial Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_655
hg19
chr1:57525528-61957753
chr1
57,525,528
61,957,753
Disease
Connective Tissue
Sarcoma
Prediction
AmpliconArchitect
Not Available
JUN,TACSTD2
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:57525528-61957753,chr1:62222161-62222771,chr1:63837377-64037987,chr3:71386171-71386781,chr3:72471700-72680542,chr3:73905686-74562951,chr3:77051805-77504253,chr3:79434765-80238006,chr5:23323147-23807748,chr6:38755790-45030872,chr6:46731406-46994992,chr6:47157052-47664266,chr6:50327526-50822504,chr6:52254785-52837796,chr6:100508231-100895311,chr6:106966062-107371217,chr6:113733847-113761201,chr6:116401623-116602233,chr6:117163955-117498082,chr8:34160444-34161054,chr8:112380335-112401892,chr9:136728302-136748912,chr11:122967004-122967614,chr12:48331349-48615413,chr12:54808197-55247021,chr12:55649632-56097046,chr12:56320073-56538903,chr12:57660866-58853495,chr12:59401903-59608018,chr12:61465121-63458515,chr12:63614545-63614819,chr12:64571345-64787765,chr12:66131560-66342170,chr12:67350234-67595924,chr12:67856463-71732253,chr12:74958869-75169478,chr12:75652527-77811704,chr16:72747130-72747740,chrX:106472572-106473182
Homo sapiens
ecDNA
ec_hsa_656
hg19
chr1:58458590-58459026
chr1
58,458,590
58,459,026
Disease
Stomach
Gastric Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_657
hg19
chr1:58879932-59784978
chr1
58,879,932
59,784,978
Disease
Prostate
Prostate Cancer
Prediction
AmpliconArchitect
Not Available
JUN,TACSTD2
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:58879932-59784978
Homo sapiens
ecDNA
ec_hsa_658
hg19
chr1:59096224-59096865
chr1
59,096,224
59,096,865
Disease
Ovary
Ovarian Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_659
hg19
chr1:60532603-62631489
chr1
60,532,603
62,631,489
Disease
Esophagus
Esophageal Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:38763603-44243567,chr1:48582785-48783245,chr1:60532603-62631489,chr1:115471978-120527361,chr8:108559518-108559979,chr20:33526554-33547015
Homo sapiens
ecDNA
ec_hsa_660
hg19
chr1:60652451-60869298
chr1
60,652,451
60,869,298
Disease
Breast
Breast Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:60652451-60869298,chr1:63004502-63295692,chr1:146628197-146887011,chr1:151441284-151756823,chr1:152104383-152104883,chr1:160673365-162222492,chr1:176058542-176059042,chr1:197671827-207307406,chr1:214735764-215724732,chr11:76512908-78678926,chr11:79057147-79077647,chr11:83918616-83919116,chr11:101146479-101166979,chr13:66642734-66854494,chr13:71131534-71332033,chr13:76482451-77157402,chr16:12851897-14282482,chr16:14288685-14429881,chr17:46996536-49228282,chrGL000198.1:0-90085,chrGL000220.1:0-161802,chrGL000219.1:133660-174160
Homo sapiens
ecDNA
ec_hsa_661
hg19
chr1:61098354-62202602
chr1
61,098,354
62,202,602
Disease
Bladder
Bladder Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:61098354-62202602
Homo sapiens
ecDNA
ec_hsa_662
hg19
chr1:61161791-63011786
chr1
61,161,791
63,011,786
Disease
Uterine Corpus Endometrial
Uterine Corpus Endometrial Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_663
hg19
chr1:61852110-61872637
chr1
61,852,110
61,872,637
Disease
Esophagus
Esophageal Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_664
hg19
chr1:62222161-62222771
chr1
62,222,161
62,222,771
Disease
Connective Tissue
Sarcoma
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:57525528-61957753,chr1:62222161-62222771,chr1:63837377-64037987,chr3:71386171-71386781,chr3:72471700-72680542,chr3:73905686-74562951,chr3:77051805-77504253,chr3:79434765-80238006,chr5:23323147-23807748,chr6:38755790-45030872,chr6:46731406-46994992,chr6:47157052-47664266,chr6:50327526-50822504,chr6:52254785-52837796,chr6:100508231-100895311,chr6:106966062-107371217,chr6:113733847-113761201,chr6:116401623-116602233,chr6:117163955-117498082,chr8:34160444-34161054,chr8:112380335-112401892,chr9:136728302-136748912,chr11:122967004-122967614,chr12:48331349-48615413,chr12:54808197-55247021,chr12:55649632-56097046,chr12:56320073-56538903,chr12:57660866-58853495,chr12:59401903-59608018,chr12:61465121-63458515,chr12:63614545-63614819,chr12:64571345-64787765,chr12:66131560-66342170,chr12:67350234-67595924,chr12:67856463-71732253,chr12:74958869-75169478,chr12:75652527-77811704,chr16:72747130-72747740,chrX:106472572-106473182
Homo sapiens
ecDNA
ec_hsa_665
hg19
chr1:62656183-62873908
chr1
62,656,183
62,873,908
Disease
Connective Tissue
Sarcoma
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_666
hg19
chr1:63004502-63295692
chr1
63,004,502
63,295,692
Disease
Breast
Breast Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:60652451-60869298,chr1:63004502-63295692,chr1:146628197-146887011,chr1:151441284-151756823,chr1:152104383-152104883,chr1:160673365-162222492,chr1:176058542-176059042,chr1:197671827-207307406,chr1:214735764-215724732,chr11:76512908-78678926,chr11:79057147-79077647,chr11:83918616-83919116,chr11:101146479-101166979,chr13:66642734-66854494,chr13:71131534-71332033,chr13:76482451-77157402,chr16:12851897-14282482,chr16:14288685-14429881,chr17:46996536-49228282,chrGL000198.1:0-90085,chrGL000220.1:0-161802,chrGL000219.1:133660-174160
Homo sapiens
ecDNA
ec_hsa_667
hg19
chr1:63299550-63534590
chr1
63,299,550
63,534,590
Disease
Lung
Lung Squamous Cell Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:39655746-41091463,chr1:46837753-46838234,chr1:63299550-63534590,chr3:160262257-160614500,chr3:160677167-160922136,chr3:170255957-185677818,chr3:190181913-194592746,chr3:195662265-198022430,chrY:2844785-2845266,chrGL000220.1:0-161802
Homo sapiens
ecDNA
ec_hsa_668
hg19
chr1:63837377-64037987
chr1
63,837,377
64,037,987
Disease
Connective Tissue
Sarcoma
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:57525528-61957753,chr1:62222161-62222771,chr1:63837377-64037987,chr3:71386171-71386781,chr3:72471700-72680542,chr3:73905686-74562951,chr3:77051805-77504253,chr3:79434765-80238006,chr5:23323147-23807748,chr6:38755790-45030872,chr6:46731406-46994992,chr6:47157052-47664266,chr6:50327526-50822504,chr6:52254785-52837796,chr6:100508231-100895311,chr6:106966062-107371217,chr6:113733847-113761201,chr6:116401623-116602233,chr6:117163955-117498082,chr8:34160444-34161054,chr8:112380335-112401892,chr9:136728302-136748912,chr11:122967004-122967614,chr12:48331349-48615413,chr12:54808197-55247021,chr12:55649632-56097046,chr12:56320073-56538903,chr12:57660866-58853495,chr12:59401903-59608018,chr12:61465121-63458515,chr12:63614545-63614819,chr12:64571345-64787765,chr12:66131560-66342170,chr12:67350234-67595924,chr12:67856463-71732253,chr12:74958869-75169478,chr12:75652527-77811704,chr16:72747130-72747740,chrX:106472572-106473182
Homo sapiens
ecDNA
ec_hsa_669
hg19
chr1:66463767-66484418
chr1
66,463,767
66,484,418
Disease
Prostate
Prostate Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_670
hg19
chr1:66733354-66733890
chr1
66,733,354
66,733,890
Disease
Lung
Lung Adenocarcinoma
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:37708221-40644293,chr1:66733354-66733890,chr1:81384790-81425325,chr1:107735484-107736020,chr1:173073983-173074519,chr1:188977378-188977914,chr1:190118940-190119476,chr2:12960431-12960967,chr2:42610980-49099059,chr2:89610185-89610721,chr2:89913349-89913885,chr2:94399158-102936981,chr2:104390242-104390778,chr2:104787900-104788436,chr2:105309265-105349800,chr2:105687170-115223838,chr2:162201075-172541928,chr3:47982983-47983519,chr3:187528141-187528677,chr4:39935603-39936139,chr4:72105102-72105638,chr4:94444098-94444634,chr4:162129435-162129971,chr6:1651965-1652501,chr6:28863224-28863760,chr6:70433234-70433770,chr6:105735745-105736281,chr8:1618880-1819415,chr8:19739271-19739807,chr8:25691135-25691671,chr8:32852460-32852996,chr8:72434817-72435353,chr8:94291196-94291732,chr9:75686019-75686555,chr9:116684106-116684642,chr9:127884974-127885510,chr10:28829788-28830324,chr10:56533704-56534240,chr10:88431756-88432292,chr10:100528192-100528728,chr10:133261069-133261605,chr11:38138873-38139409,chr11:81919769-81920305,chr11:92404463-92404999,chr11:92512100-92512636,chr11:107256366-107256902,chr11:114055828-114056364,chr12:13330763-13331299,chr13:83235377-83235913,chr13:91330798-91331334,chr14:26862268-28076868,chr14:28077966-43705618,chr14:44566488-44567024,chr15:45559584-45560120,chr15:55103463-55103999,chr15:65031035-65031571,chr15:80120089-80120625,chr16:34572125-34772661,chr16:61078730-61079266,chr17:12907061-13637596,chr18:30195555-30196091,chr18:65913723-74688113,chr19:11421466-11422002,chr19:32668347-32668883,chr19:39036859-39037395,chr20:7763157-7763693,chr20:57435863-57436399,chr21:23101219-23141166,chr21:23672953-24092026,chr21:42441349-42441885
Homo sapiens
ecDNA
ec_hsa_671
hg19
chr1:66838408-66925412
chr1
66,838,408
66,925,412
Disease
Breast
Breast Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_672
hg19
chr1:68395262-68395728
chr1
68,395,262
68,395,728
Disease
Breast
Breast Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:68395262-68395728,chr8:73874569-106426224,chr8:115404449-121981153,chr8:124254689-131953207,chr11:67796836-72080906,chr11:72253554-72274020,chr13:38370671-38371137,chr14:29210105-38567987,chr14:41100239-44255760,chr14:47136640-54275839,chr22:22614742-22615208,chrGL000220.1:0-161802
Homo sapiens
ecDNA
ec_hsa_673
hg19
chr1:76986108-77198483
chr1
76,986,108
77,198,483
Disease
Head and Neck
Head and Neck Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:76986108-77198483,chr1:156265749-156266538
Homo sapiens
ecDNA
ec_hsa_674
hg19
chr1:79092860-79093626
chr1
79,092,860
79,093,626
Disease
Ovary
Ovarian Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_675
hg19
chr1:80533743-80534171
chr1
80,533,743
80,534,171
Disease
Bladder
Bladder Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_676
hg19
chr1:81384790-81425325
chr1
81,384,790
81,425,325
Disease
Lung
Lung Adenocarcinoma
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:37708221-40644293,chr1:66733354-66733890,chr1:81384790-81425325,chr1:107735484-107736020,chr1:173073983-173074519,chr1:188977378-188977914,chr1:190118940-190119476,chr2:12960431-12960967,chr2:42610980-49099059,chr2:89610185-89610721,chr2:89913349-89913885,chr2:94399158-102936981,chr2:104390242-104390778,chr2:104787900-104788436,chr2:105309265-105349800,chr2:105687170-115223838,chr2:162201075-172541928,chr3:47982983-47983519,chr3:187528141-187528677,chr4:39935603-39936139,chr4:72105102-72105638,chr4:94444098-94444634,chr4:162129435-162129971,chr6:1651965-1652501,chr6:28863224-28863760,chr6:70433234-70433770,chr6:105735745-105736281,chr8:1618880-1819415,chr8:19739271-19739807,chr8:25691135-25691671,chr8:32852460-32852996,chr8:72434817-72435353,chr8:94291196-94291732,chr9:75686019-75686555,chr9:116684106-116684642,chr9:127884974-127885510,chr10:28829788-28830324,chr10:56533704-56534240,chr10:88431756-88432292,chr10:100528192-100528728,chr10:133261069-133261605,chr11:38138873-38139409,chr11:81919769-81920305,chr11:92404463-92404999,chr11:92512100-92512636,chr11:107256366-107256902,chr11:114055828-114056364,chr12:13330763-13331299,chr13:83235377-83235913,chr13:91330798-91331334,chr14:26862268-28076868,chr14:28077966-43705618,chr14:44566488-44567024,chr15:45559584-45560120,chr15:55103463-55103999,chr15:65031035-65031571,chr15:80120089-80120625,chr16:34572125-34772661,chr16:61078730-61079266,chr17:12907061-13637596,chr18:30195555-30196091,chr18:65913723-74688113,chr19:11421466-11422002,chr19:32668347-32668883,chr19:39036859-39037395,chr20:7763157-7763693,chr20:57435863-57436399,chr21:23101219-23141166,chr21:23672953-24092026,chr21:42441349-42441885
Homo sapiens
ecDNA
ec_hsa_677
hg19
chr1:86001724-86022428
chr1
86,001,724
86,022,428
Disease
Liver
Liver Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:86001724-86022428,chr6:402729-57295103,chr8:48100000-146364021
Homo sapiens
ecDNA
ec_hsa_678
hg19
chr1:86002670-86023585
chr1
86,002,670
86,023,585
Disease
Liver
Liver Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:86002670-86023585,chr1:145132501-249250620,chr6:39681-170907734
Homo sapiens
ecDNA
ec_hsa_679
hg19
chr1:86002865-86023647
chr1
86,002,865
86,023,647
Disease
Liver
Liver Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:86002865-86023647,chr6:39681-58699999,chr8:38430109-43099999,chr8:48100000-146364021,chr12:30500663-30511446,chr16:60908203-60918985
Homo sapiens
ecDNA
ec_hsa_680
hg19
chr1:86002907-86023466
chr1
86,002,907
86,023,466
Disease
Liver
Liver Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:86002907-86023466,chr6:400201-70130003
Homo sapiens
ecDNA
ec_hsa_681
hg19
chr1:86002910-86023717
chr1
86,002,910
86,023,717
Disease
Liver
Liver Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_682
hg19
chr1:86927404-109661934
chr1
86,927,404
109,661,934
Disease
Liver
Liver Cancer
Prediction
AmpliconArchitect
Not Available
EVI5,GFI1,LMO4,VAV3
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:86927404-109661934,chr1:115318418-115329079,chr1:118854014-249250620,chr9:94383980-94404641,chr21:30489635-30510296
Homo sapiens
ecDNA
ec_hsa_683
hg19
chr1:88267820-88268499
chr1
88,267,820
88,268,499
Disease
Lung
Lung Adenocarcinoma
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:88267820-88268499,chr14:35180412-38710363,chr22:36300667-36301346
Homo sapiens
ecDNA
ec_hsa_684
hg19
chr1:90746549-91002760
chr1
90,746,549
91,002,760
Disease
Breast
Breast Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_685
hg19
chr1:95422281-95423017
chr1
95,422,281
95,423,017
Disease
Head and Neck
Head and Neck Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:95422281-95423017,chr3:147468000-182794583
Homo sapiens
ecDNA
ec_hsa_686
hg19
chr1:98191685-98673787
chr1
98,191,685
98,673,787
Disease
Head and Neck
Head and Neck Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:98191685-98673787
Homo sapiens
ecDNA
ec_hsa_687
hg19
chr1:98651343-99721426
chr1
98,651,343
99,721,426
Disease
Skin
Skin Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:98651343-99721426,chr1:101014193-101398324,chr1:116564769-120775880,chr2:141852145-141852900,chr8:43451877-43652631,chr8:47109526-47110281,chr8:52385437-52586192,chr8:62087769-62088524,chr8:65063772-65264526,chr8:115787541-115888296,chr11:76759199-76759954,chr13:78879248-79109035,chr13:85115940-85698479,chr13:86911942-96370425,chr17:48011335-48416845,chrGL000226.1:0-15008,chrGL000220.1:0-161802
Homo sapiens
ecDNA
ec_hsa_688
hg19
chr1:101014193-101398324
chr1
101,014,193
101,398,324
Disease
Skin
Skin Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:98651343-99721426,chr1:101014193-101398324,chr1:116564769-120775880,chr2:141852145-141852900,chr8:43451877-43652631,chr8:47109526-47110281,chr8:52385437-52586192,chr8:62087769-62088524,chr8:65063772-65264526,chr8:115787541-115888296,chr11:76759199-76759954,chr13:78879248-79109035,chr13:85115940-85698479,chr13:86911942-96370425,chr17:48011335-48416845,chrGL000226.1:0-15008,chrGL000220.1:0-161802
Homo sapiens
ecDNA
ec_hsa_689
hg19
chr1:102113821-102114477
chr1
102,113,821
102,114,477
Disease
Colon
Colorectal Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:102113821-102114477,chr1:234357889-234358545,chr2:33041300-33241955,chr2:48323845-48324501,chr2:128822085-128822741,chr2:182980559-182981215,chr2:193443367-193444023,chr3:60988898-60989554,chr3:65774494-65775150,chr4:107432075-107432731,chr4:133388117-133388773,chr4:190904072-190944727,chr5:122727816-122728472,chr5:128662996-128663652,chr5:137713346-137714002,chr5:141456303-141456959,chr6:90257838-90766362,chr7:42484906-42485562,chr7:140393033-140393689,chr8:64237230-64257886,chr8:78150766-78151422,chr8:125138946-125139602,chr10:16534023-16534679,chr10:60976614-60977270,chr11:78316042-78316698,chr13:19450805-61502789,chr13:61506147-85553997,chr13:85555972-88301205,chr13:88315914-90288380,chr13:90292500-114987458,chr14:44866039-44886695,chr14:59043875-59044531,chr15:41850879-41871535,chr15:87817937-87818593,chr15:96961998-96962654,chr17:39540678-39541334,chr17:69137301-69137957,chr18:23225603-23226259,chrX:95915990-95916646,chrX:116334937-116335593,chrY:9851169-10081825,chrGL000241.1:0-42152,chrGL000195.1:0-182896,chrGL000225.1:67933-211173
Homo sapiens
ecDNA
ec_hsa_690
hg19
chr1:104132617-104812575
chr1
104,132,617
104,812,575
Disease
Ovary
Ovarian Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_691
hg19
chr1:104480289-104480854
chr1
104,480,289
104,480,854
Disease
Esophagus
Esophageal Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_692
hg19
chr1:106379730-106400455
chr1
106,379,730
106,400,455
Disease
Colon
Colorectal Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_693
hg19
chr1:106426754-106447448
chr1
106,426,754
106,447,448
Disease
Skin
Skin Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:106426754-106447448,chr5:80587-101281,chr5:1242008-24965827,chr5:26553646-26771727,chr5:27104288-27144981,chr5:28383277-28383971,chr5:29308451-29621336,chr5:29741149-30385265,chr5:31877486-33080089,chr5:34359655-34380349,chr22:30197316-30383469,chr22:34233856-35388178,chr22:38180683-48327400,chr22:48631627-48652321,chr22:49172525-49373219,chr22:49409403-49874955,chr22:50970448-51171142,chr22:51221026-51304566
Homo sapiens
ecDNA
ec_hsa_694
hg19
chr1:106632132-106632722
chr1
106,632,132
106,632,722
Disease
Esophagus
Esophageal Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:53262546-53263136,chr1:106632132-106632722,chr2:89068512-89089101,chr2:98170206-98190796,chr2:115306901-124565765,chr4:39127845-39128435,chr5:124951420-124952010,chr6:55407554-55408144,chr8:113923461-113944051,chr9:131458073-131458663,chr13:71428192-71428782,chr16:7341436-7342026,chr21:41889764-41890354,chrGL000212.1:0-142322
Homo sapiens
ecDNA
ec_hsa_695
hg19
chr1:106818442-115014473
chr1
106,818,442
115,014,473
Disease
Ovary
Ovarian Cancer
Prediction
AmpliconArchitect
Not Available
AHCYL1,CSF1,LAMTOR5,RAP1A,RBM15,RHOC,VAV3
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_696
hg19
chr1:107735484-107736020
chr1
107,735,484
107,736,020
Disease
Lung
Lung Adenocarcinoma
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:37708221-40644293,chr1:66733354-66733890,chr1:81384790-81425325,chr1:107735484-107736020,chr1:173073983-173074519,chr1:188977378-188977914,chr1:190118940-190119476,chr2:12960431-12960967,chr2:42610980-49099059,chr2:89610185-89610721,chr2:89913349-89913885,chr2:94399158-102936981,chr2:104390242-104390778,chr2:104787900-104788436,chr2:105309265-105349800,chr2:105687170-115223838,chr2:162201075-172541928,chr3:47982983-47983519,chr3:187528141-187528677,chr4:39935603-39936139,chr4:72105102-72105638,chr4:94444098-94444634,chr4:162129435-162129971,chr6:1651965-1652501,chr6:28863224-28863760,chr6:70433234-70433770,chr6:105735745-105736281,chr8:1618880-1819415,chr8:19739271-19739807,chr8:25691135-25691671,chr8:32852460-32852996,chr8:72434817-72435353,chr8:94291196-94291732,chr9:75686019-75686555,chr9:116684106-116684642,chr9:127884974-127885510,chr10:28829788-28830324,chr10:56533704-56534240,chr10:88431756-88432292,chr10:100528192-100528728,chr10:133261069-133261605,chr11:38138873-38139409,chr11:81919769-81920305,chr11:92404463-92404999,chr11:92512100-92512636,chr11:107256366-107256902,chr11:114055828-114056364,chr12:13330763-13331299,chr13:83235377-83235913,chr13:91330798-91331334,chr14:26862268-28076868,chr14:28077966-43705618,chr14:44566488-44567024,chr15:45559584-45560120,chr15:55103463-55103999,chr15:65031035-65031571,chr15:80120089-80120625,chr16:34572125-34772661,chr16:61078730-61079266,chr17:12907061-13637596,chr18:30195555-30196091,chr18:65913723-74688113,chr19:11421466-11422002,chr19:32668347-32668883,chr19:39036859-39037395,chr20:7763157-7763693,chr20:57435863-57436399,chr21:23101219-23141166,chr21:23672953-24092026,chr21:42441349-42441885
Homo sapiens
ecDNA
ec_hsa_697
hg19
chr1:108046568-108247072
chr1
108,046,568
108,247,072
Disease
Pancreatic
Pancreatic Cancer
Prediction
AmpliconArchitect
Not Available
VAV3
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_698
hg19
chr1:108265605-108266155
chr1
108,265,605
108,266,155
Disease
Esophagus
Esophageal Cancer
Prediction
AmpliconArchitect
Not Available
VAV3
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available
Homo sapiens
ecDNA
ec_hsa_699
hg19
chr1:109494567-109495132
chr1
109,494,567
109,495,132
Disease
Esophagus
Esophageal Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
These chromosome segments together form the ecDNA:chr1:109494567-109495132,chr3:93734670-112999611,chr10:15261810-15262375
Homo sapiens
ecDNA
ec_hsa_700
hg19
chr1:112765205-112965736
chr1
112,765,205
112,965,736
Disease
Esophagus
Esophageal Cancer
Prediction
AmpliconArchitect
Not Available
Not Available
Information on accessing the data from the International Cancer Genomics Consortium, including raw read files, can be found at https://docs.icgc.org/pcawg/data/. All open-access TCGA data are publicly available through NCI Genomic Data Commons (https://gdc.cancer.gov/).
WGS
32807987
2021
EcDNA amplifications resulted in higher levels of oncogene transcription compared to copy number-matched linear DNA, coupled with enhanced chromatin accessibility, and more frequently resulted in transcript fusions.
Not Available