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metadata
library_name: sentence-transformers
pipeline_tag: sentence-similarity
tags:
  - sentence-transformers
  - sentence-similarity
  - feature-extraction
  - generated_from_trainer
  - dataset_size:26147930
  - loss:MultipleNegativesRankingLoss
widget:
  - source_sentence: >-
      [YEAR_RANGE] 2020-2024 [TEXT] Vitamin B-6 Prevents Heart Failure with
      Preserved Ejection Fraction Through Downstream of Kinase 3 in a Mouse
      Model.
    sentences:
      - >-
        [YEAR_RANGE] 2020-2024 [TEXT] Colorectal cancer (CRC) is a complex and
        genetically heterogeneous disease presenting a specific metastatic
        pattern, with the liver being the most common site of metastasis. Around
        20%-25% of patients with CRC will develop exclusively hepatic metastatic
        disease throughout their disease history. With its specific
        characteristics and therapeutic options, liver-limited disease (LLD)
        should be considered as a specific entity. The identification of these
        patients is particularly relevant in view of the growing interest in
        liver transplantation in selected patients with advanced CRC.
        Identifying why some patients will develop only LLD remains a challenge,
        mainly because of a lack of a systemic understanding of this complex and
        interlinked phenomenon given that cancer has traditionally been
        investigated according to distinct physiological compartments. Recently,
        multidisciplinary efforts and new diagnostic tools have made it possible
        to study some of these complex issues in greater depth and may help
        identify targets and specific treatment strategies to benefit these
        patients. In this review we analyze the underlying biology and available
        tools to help clinicians better understand this increasingly common and
        specific disease.
      - >-
        [YEAR_RANGE] 2020-2024 [TEXT] PURPOSE: Secondary breast cancer is a
        frequent late adverse event of mediastinal Hodgkin lymphoma
        radiotherapy. Secondary breast cancers overwhelmingly correspond to
        ductal carcinoma and develop from the glandular mammary tissue. In
        addition, during childhood, radiation overexposure of the glandular
        tissue may lead to a late breast hypotrophy at adult age. The aim of
        this study was to evaluate the radiation exposure to the glandular
        tissue in patients treated for mediastinal Hodgkin lymphoma with
        intensity-modulated proton therapy, in order to evaluate the potential
        dosimetric usefulness of its delineation for breast sparing. MATERIALS
        AND METHODS: Sixteen consecutive intermediate-risk mediastinal female
        patients with Hodgkin lymphoma treated with consolidation radiation with
        deep inspiration breath hold intensity-modulated proton therapy to the
        total dose of 30Gy were included. Breasts were delineated according to
        the European Society for Radiotherapy and Oncology guidelines for
        treatment optimization ("clinical organ at risk"). The glandular tissue
        ("glandular organ at risk") was retrospectively contoured on the initial
        simulation CT scans based on Hounsfield unit (HU) values, using a range
        between -80HU and 500HU. RESULTS: The mean and maximum doses delivered
        to the glandular organ at risk were significantly lower than the mean
        and maximum doses delivered to the clinical organ at risk, but were
        statistically correlated. Glandular organ at risk volumes were
        significantly smaller. CONCLUSION: Optimizing the treatment plans on the
        clinical breast contours will systematically lead to overestimation of
        the dose received to the glandular tissue and, consequently, to an
        indistinct and involuntary improved glandular tissue sparing. As such,
        our findings do not support the consideration of the glandular tissue as
        an additional organ at risk when planning intensity-modulated proton
        therapy for mediastinal Hodgkin lymphoma in female patients.
      - >-
        [YEAR_RANGE] 2020-2024 [TEXT] BACKGROUND: There is an urgent need to
        develop an efficient therapeutic strategy for heart failure with
        preserved ejection fraction (HFpEF), which is mediated by phenotypic
        changes in cardiac macrophages. We previously reported that vitamin B-6
        inhibits macrophage-mediated inflammasome activation. OBJECTIVES: We
        sought to examine whether the prophylactic use of vitamin B-6 prevents
        HFpEF. METHODS: HFpEF model was elicited by a combination of high-fat
        diet and Nω-nitro-l-arginine methyl ester supplement in mice. Cardiac
        function was assessed using conventional echocardiography and Doppler
        imaging. Immunohistochemistry and immunoblotting were used to detect
        changes in the macrophage phenotype and myocardial remodeling-related
        molecules. RESULTS: Co-administration of vitamin B-6 with HFpEF mice
        mitigated HFpEF phenotypes, including diastolic dysfunction, cardiac
        macrophage phenotypic shifts, fibrosis, and hypertrophy.
        Echocardiographic improvements were observed, with the E/E' ratio
        decreasing from 42.0 to 21.6 and the E/A ratio improving from 2.13 to
        1.17. The exercise capacity also increased from 295.3 to 657.7 min.
        However, these beneficial effects were negated in downstream of kinase
        (DOK) 3-deficient mice. Mechanistically, vitamin B-6 increased DOK3
        protein concentrations and inhibited macrophage phenotypic changes,
        which were abrogated by an AMP-activated protein kinase inhibitor.
        CONCLUSIONS: Vitamin B-6 increases DOK3 signaling to lower risk of HFpEF
        by inhibiting phenotypic changes in cardiac macrophages.
  - source_sentence: >-
      [YEAR_RANGE] 2020-2024 [TEXT] Resolving phylogenetic relationships and
      taxonomic revision in the Pseudogastromyzon (Cypriniformes,
      Gastromyzonidae) genus: molecular and morphological evidence for a new
      genus, Labigastromyzon.
    sentences:
      - >-
        [YEAR_RANGE] 2020-2024 [TEXT] Bats contain a diverse spectrum of viral
        species in their bodies. The RNA virus family Paramyxoviridae tends to
        infect several vertebrate species, which are accountable for a variety
        of devastating infections in both humans and animals. Viruses of this
        kind include measles, mumps, and Hendra. Some synonymous codons are
        favoured over others in mRNAs during gene-to-protein synthesis process.
        Such phenomenon is termed as codon usage bias (CUB). Our research
        emphasized many aspects that shape the CUB of genes in the
        Paramyxoviridae family found in bats. Here, the nitrogenous base A
        occurred the most. AT was found to be abundant in the coding sequences
        of the Paramyxoviridae family. RSCU data revealed that A or T ending
        codons occurred more frequently than predicted. Furthermore, 3
        overrepresented codons (CAT, AGA, and GCA) and 7 underrepresented codons
        (CCG, TCG, CGC, CGG, CGT, GCG and ACG) were detected in the viral
        genomes. Correspondence analysis, neutrality plot, and parity plots
        highlight the combined impact of mutational pressure and natural
        selection on CUB. The neutrality plot of GC12 against GC3 yielded a
        regression coefficient value of 0.366, indicating that natural selection
        had a significant (63.4 %) impact. Moreover, RNA editing analysis was
        done, which revealed the highest frequency of C to T mutations. The
        results of our research revealed the pattern of codon usage and RNA
        editing sites in Paramyxoviridae genomes.
      - >-
        [YEAR_RANGE] 2020-2024 [TEXT] OBJECTIVE: The preoperative inclination
        angle of mandibular incisors was crucial for surgical and postoperative
        stability while the effect of proclined mandibular incisors on skeletal
        stability has not been investigated. This study aimed to evaluate the
        effects of differences in presurgical mandibular incisor inclination on
        skeletal stability after orthognathic surgery in patients with skeletal
        Class III malocclusion. METHODS: A retrospective cohort study of 80
        consecutive patients with skeletal Class III malocclusion who underwent
        bimaxillary orthognathic surgery was conducted. According to incisor
        mandibular plane angle (IMPA), patients were divided into 3 groups:
        retroclined inclination (IMPA < 87°), normal inclination (87° ≤ IMPA <
        93°) and proclined inclination (IMPA ≥ 93°). Preoperative
        characteristics, surgical changes and postoperative stability were
        compared based on lateral cephalograms obtained 1 week before surgery
        (T0), 1 week after surgery (T1), and at 6 to 12 months postoperatively
        (T2). RESULTS: The mandible demonstrated a forward and upward relapse in
        all three groups. No significant differences in skeletal relapse were
        observed in the 3 groups of patients. However, the proclined inclination
        group showed a negative overbite tendency postoperatively compared with
        the other two groups and a clinically significant mandibular relapse
        pattern. Proclined IMPA both pre- and postoperatively was correlated
        with mandibular relapse. CONCLUSION: Sufficient presurgical mandibular
        incisor decompensation was of crucial importance for the maintenance of
        skeletal stability in patients with skeletal Class III malocclusion who
        subsequently underwent orthognathic surgery.
      - >-
        [YEAR_RANGE] 2020-2024 [TEXT] The Pseudogastromyzon genus, consisting of
        species predominantly distributed throughout southeastern China, has
        garnered increasing market attention in recent years due to its
        ornamental appeal. However, the overlapping diagnostic attributes render
        the commonly accepted criteria for interspecific identification
        unreliable, leaving the phylogenetic relationships among
        Pseudogastromyzon species unexplored. In the present study, we undertake
        molecular phylogenetic and morphological examinations of the
        Pseudogastromyzon genus. Our phylogenetic analysis of mitochondrial
        genes distinctly segregated Pseudogastromyzon species into two clades:
        the Pseudogastromyzon clade and the Labigastromyzon clade. A subsequent
        morphological assessment revealed that the primary dermal ridge
        (specifically, the second ridge) within the labial adhesive apparatus
        serves as an effective and precise interspecific diagnostic
        characteristic. Moreover, the distributional ranges of Pseudogastromyzon
        and Labigastromyzon are markedly distinct, exhibiting only a narrow area
        of overlap. Considering the morphological heterogeneity of the labial
        adhesive apparatus and the substantial division within the molecular
        phylogeny, we advocate for the elevation of the Labigastromyzon subgenus
        to the status of a separate genus. Consequently, we have ascertained the
        validity of the Pseudogastromyzon and Labigastromyzon species, yielding
        a total of six valid species. To facilitate future research, we present
        comprehensive descriptions of the redefined species and introduce novel
        identification keys.
  - source_sentence: >-
      [YEAR_RANGE] 2020-2024 [TEXT] PCa-RadHop: A transparent and lightweight
      feed-forward method for clinically significant prostate cancer
      segmentation.
    sentences:
      - >-
        [YEAR_RANGE] 2020-2024 [TEXT] According to the importance of time in
        treatment of thrombosis disorders, faster than current treatments are
        required. For the first time, this research discloses a novel strategy
        for rapid dissolution of blood clots by encapsulation of a fibrinolytic
        (Reteplase) into a Thrombin sensitive shell formed by polymerization of
        acrylamide monomers and bisacryloylated peptide as crosslinker.
        Degradability of the peptide units in exposure to Thrombin, creates the
        Thrombin-sensitive Reteplase nanocapsules (TSRNPs) as a triggered
        release system. Accelerated thrombolysis was achieved by combining three
        approaches including: deep penetration of TSRNPs into the blood clots,
        changing the clot dissolution mechanism by altering the distribution
        pattern of TSRNPs to 3D intra-clot distribution (based on the
        distributed intra-clot thrombolysis (DIT) model) instead of peripheral
        and unidirectional distribution of unencapsulated fibrinolytics and,
        enzyme-stimulated release of the fibrinolytic. Ex-vivo study was carried
        out by an occluded tube model that mimics in-vivo brain stroke as an
        emergency situation where faster treatment in short time is a golden
        key. In in vivo, efficacy of the developed formulation was confirmed by
        PET scan and laser Doppler flowmetry (LDF). As the most important
        achievements, 40.0 ± 0.7 (n = 3) % and 37.0 ± 0.4 (n = 3) % reduction in
        the thrombolysis time (faster reperfusion) were observed by ex-vivo and
        in-vivo experiments, respectively. Higher blood flow and larger
        digestion mass of clot at similar times in comparison to
        non-encapsulated Reteplase were observed that means more effective
        thrombolysis by the developed strategy.
      - >-
        [YEAR_RANGE] 2020-2024 [TEXT] Prostate Cancer is one of the most
        frequently occurring cancers in men, with a low survival rate if not
        early diagnosed. PI-RADS reading has a high false positive rate, thus
        increasing the diagnostic incurred costs and patient discomfort. Deep
        learning (DL) models achieve a high segmentation performance, although
        require a large model size and complexity. Also, DL models lack of
        feature interpretability and are perceived as "black-boxes" in the
        medical field. PCa-RadHop pipeline is proposed in this work, aiming to
        provide a more transparent feature extraction process using a linear
        model. It adopts the recently introduced Green Learning (GL) paradigm,
        which offers a small model size and low complexity. PCa-RadHop consists
        of two stages: Stage-1 extracts data-driven radiomics features from the
        bi-parametric Magnetic Resonance Imaging (bp-MRI) input and predicts an
        initial heatmap. To reduce the false positive rate, a subsequent stage-2
        is introduced to refine the predictions by including more contextual
        information and radiomics features from each already detected Region of
        Interest (ROI). Experiments on the largest publicly available dataset,
        PI-CAI, show a competitive performance standing of the proposed method
        among other deep DL models, achieving an area under the curve (AUC) of
        0.807 among a cohort of 1,000 patients. Moreover, PCa-RadHop maintains
        orders of magnitude smaller model size and complexity.
      - >-
        [YEAR_RANGE] 2020-2024 [TEXT] OBJECTIVE: To evaluate rates of remission,
        recovery, relapse, and recurrence in suicidal youth who participated in
        a clinical trial comparing Dialectical Behavior Therapy (DBT) and
        Individual and Group Supportive Therapy (IGST). METHOD: Participants
        were 173 youth, aged 12 to 18 years, with repetitive self-harm
        (including at least 1 prior suicide attempt [SA]) and elevated suicidal
        ideation (SI). Participants received 6 months of DBT or IGST and were
        followed for 6 months post-treatment. The sample was 95% female, 56.4%
        White, and 27.49% Latina. Remission was defined as absence of SA or
        nonsuicidal self-injury (NSSI) across one 3-month interval; recovery was
        defined across 2 or more consecutive intervals. Relapse and recurrence
        were defined as SA or NSSI following remission or recovery.
        Cross-tabulation with χ2 was used for between-group contrasts. RESULTS:
        Over 70% of the sample reported remission of SA at each treatment and
        follow-up interval. There were significantly higher rates of remission
        and recovery and lower rates of relapse and recurrence for SA in DBT
        than for IGST. Across treatments and time points, SA had higher
        remission and recovery rates and lower relapse and recurrence rates than
        NSSI. There were no significant differences in NSSI remission between
        conditions; however, participants receiving DBT had significantly higher
        NSSI recovery rates than those receiving IGST for the 3- to 9-month, 3-
        to 12-month, and 6- to 12-month intervals. CONCLUSION: Results showed
        higher percentages of SA remission and recovery for DBT as compared to
        IGST. NSSI was less likely to remit than SA. PLAIN LANGUAGE SUMMARY:
        This study examined rates of remission, recovery, relapse, and
        recurrence of suicide attempts (SA) and nonsuicidal self-injury (NSSI)
        among the participants in the CARES Study, a randomized clinical trial
        of 6 months of Dialectical Behavior Therapy or Individual and Group
        Supportive Therapy. 173 youth aged 12 to 18 years participated in the
        study and were followed for 6 months post treatment. Over 70% of the
        sample reported remission of SA at each treatment and follow-up
        interval. There were significantly higher rates of remission and
        recovery and lower rates of relapse and recurrence for SA among
        participants who received Dialectical Behavioral Therapy. Across both
        treatments, remission and recovery rates were lower and relapse and
        recurrence rates were higher for NSSI than for SA. These results
        underscore the value of Dialectical Behavioral Therapy as a first line
        treatment for youth at high risk for suicide. DIVERSITY & INCLUSION
        STATEMENT: We worked to ensure race, ethnic, and/or other types of
        diversity in the recruitment of human participants. CLINICAL TRIAL
        REGISTRATION INFORMATION: Collaborative Adolescent Research on Emotions
        and Suicide (CARES); https://www. CLINICALTRIALS: gov/; NCT01528020.
  - source_sentence: >-
      [YEAR_RANGE] 2020-2024 [TEXT] Predicting Recovery After Concussion in
      Pediatric Patients: A Meta-Analysis.
    sentences:
      - >-
        [YEAR_RANGE] 2020-2024 [TEXT] OBJECTIVE: The authors examined licensing
        requirements for select children's behavioral health care providers.
        METHODS: Statutes and regulations as of October 2021 were reviewed for
        licensed clinical social workers, licensed professional counselors, and
        licensed marriage and family therapists for all 50 U.S. states and the
        District of Columbia. RESULTS: All jurisdictions had laws regarding
        postgraduate training and license portability. No jurisdiction included
        language about specialized postgraduate training related to serving
        children and families or cultural competence. Other policies that
        related to the structure, composition, and authority of licensing boards
        varied across states and licensure types. CONCLUSIONS: In their efforts
        to address barriers to licensure, expand the workforce, and ensure that
        children have access to high-quality and culturally responsive care,
        states could consider their statutes and regulations.
      - >-
        [YEAR_RANGE] 2020-2024 [TEXT] Magnetic Resonance Imaging (MRI) plays a
        pivotal role in the accurate measurement of brain subcortical structures
        in macaques, which is crucial for unraveling the complexities of brain
        structure and function, thereby enhancing our understanding of
        neurodegenerative diseases and brain development. However, due to
        significant differences in brain size, structure, and imaging
        characteristics between humans and macaques, computational tools
        developed for human neuroimaging studies often encounter obstacles when
        applied to macaques. In this context, we propose an Anatomy Attentional
        Fusion Network (AAF-Net), which integrates multimodal MRI data with
        anatomical constraints in a multi-scale framework to address the
        challenges posed by the dynamic development, regional heterogeneity, and
        age-related size variations of the juvenile macaque brain, thus
        achieving precise subcortical segmentation. Specifically, we generate a
        Signed Distance Map (SDM) based on the initial rough segmentation of the
        subcortical region by a network as an anatomical constraint, providing
        comprehensive information on positions, structures, and morphology. Then
        we construct AAF-Net to fully fuse the SDM anatomical constraints and
        multimodal images for refined segmentation. To thoroughly evaluate the
        performance of our proposed tool, over 700 macaque MRIs from 19 datasets
        were used in this study. Specifically, we employed two manually labeled
        longitudinal macaque datasets to develop the tool and complete four-fold
        cross-validations. Furthermore, we incorporated various external
        datasets to demonstrate the proposed tool's generalization capabilities
        and promise in brain development research. We have made this tool
        available as an open-source resource at
        https://github.com/TaoZhong11/Macaque_subcortical_segmentation for
        direct application.
      - >-
        [YEAR_RANGE] 2020-2024 [TEXT] CONTEXT: Prognostic prediction models
        (PPMs) can help clinicians predict outcomes. OBJECTIVE: To critically
        examine peer-reviewed PPMs predicting delayed recovery among pediatric
        patients with concussion. DATA SOURCES: Ovid Medline, Embase, Ovid
        PsycInfo, Web of Science Core Collection, Cumulative Index to Nursing
        and Allied Health Literature, Cochrane Library, Google Scholar. STUDY
        SELECTION: The study had to report a PPM for pediatric patients to be
        used within 28 days of injury to estimate risk of delayed recovery at 28
        days to 1 year postinjury. Studies had to have at least 30 participants.
        DATA EXTRACTION: The Critical Appraisal and Data Extraction for
        Systematic Reviews of Prediction Modeling Studies checklist was
        completed. RESULTS: Six studies of 13 PPMs were included. These studies
        primarily reflected male patients in late childhood or early adolescence
        presenting to an emergency department meeting the Concussion in Sport
        Group concussion criteria. No study authors used the same outcome
        definition nor evaluated the clinical utility of a model. All studies
        demonstrated high risk of bias. Quality of evidence was best for the
        Predicting and Preventing Postconcussive Problems in Pediatrics (5P)
        clinical risk score. LIMITATIONS: No formal PPM Grading of
        Recommendations, Assessment, Development, and Evaluations (GRADE)
        process exists. CONCLUSIONS: The 5P clinical risk score may be
        considered for clinical use. Rigorous external validations, particularly
        in other settings, are needed. The remaining PPMs require external
        validation. Lack of consensus regarding delayed recovery criteria limits
        these PPMs.
  - source_sentence: >-
      [YEAR_RANGE] 2020-2024 [TEXT] Intraoperative Monitoring of the External
      Urethral Sphincter Reflex: A Novel Adjunct to Bulbocavernosus Reflex
      Neuromonitoring for Protecting the Sacral Neural Pathways Responsible for
      Urination, Defecation and Sexual Function.
    sentences:
      - >-
        [YEAR_RANGE] 2020-2024 [TEXT] Early menarche has been associated with
        adverse health outcomes, such as depressive symptoms. Discovering effect
        modifiers across these conditions in the pediatric population is a
        constant challenge. We tested whether movement behaviours modified the
        effect of the association between early menarche and depression symptoms
        among adolescents. This cross-sectional study included 2031 females aged
        15-19 years across all Brazilian geographic regions. Data were collected
        using a self-administered questionnaire; 30.5% (n = 620) reported having
        experienced menarche before age 12 years (that is, early menarche). We
        used the Patient Health Questionnaire (PHQ-9) to evaluate depressive
        symptoms. Accruing any moderate-vigorous physical activity during
        leisure time, limited recreational screen time, and having good sleep
        quality were the exposures investigated. Adolescents who experienced
        early menarche and met one (B: -4.45, 95% CI: (-5.38, -3.51)), two (B:
        -6.07 (-7.02, -5.12)), or three (B: -6.49 (-7.76, -5.21)), and
        adolescents who experienced not early menarche and met one (B: -5.33
        (-6.20; -4.46)), two (B: -6.12 (-6.99; -5.24)), or three (B: -6.27
        (-7.30; -5.24)) of the movement behaviour targets had lower PHQ-9 scores
        for depression symptoms than adolescents who experienced early menarche
        and did not meet any of the movement behaviours. The disparities in
        depressive symptoms among the adolescents (early menarche versus not
        early menarche) who adhered to all three target behaviours were not
        statistically significant (B: 0.41 (-0.19; 1.01)). Adherence to movement
        behaviours modified the effect of the association between early menarche
        and depression symptoms.
      - >-
        [YEAR_RANGE] 2020-2024 [TEXT] PURPOSE: Intraoperative bulbocavernosus
        reflex neuromonitoring has been utilized to protect bowel, bladder, and
        sexual function, providing a continuous functional assessment of the
        somatic sacral nervous system during surgeries where it is at risk.
        Bulbocavernosus reflex data may also provide additional functional
        insight, including an evaluation for spinal shock, distinguishing upper
        versus lower motor neuron injury (conus versus cauda syndromes) and
        prognosis for postoperative bowel and bladder function. Continuous
        intraoperative bulbocavernosus reflex monitoring has been utilized to
        provide the surgeon with an ongoing functional assessment of the
        anatomical elements involved in the S2-S4 mediated reflex arc including
        the conus, cauda equina and pudendal nerves. Intraoperative
        bulbocavernosus reflex monitoring typically includes the electrical
        activation of the dorsal nerves of the genitals to initiate the afferent
        component of the reflex, followed by recording the resulting muscle
        response using needle electromyography recordings from the external anal
        sphincter. METHODS: Herein we describe a complementary and novel
        technique that includes recording electromyography responses from the
        external urethral sphincter to monitor the external urethral sphincter
        reflex. Specialized foley catheters embedded with recording electrodes
        have recently become commercially available that provide the ability to
        perform intraoperative external urethral sphincter muscle recordings.
        RESULTS: We describe technical details and the potential utility of
        incorporating external urethral sphincter reflex recordings into
        existing sacral neuromonitoring paradigms to provide redundant yet
        complementary data streams. CONCLUSIONS: We present two illustrative
        neurosurgical oncology cases to demonstrate the utility of the external
        urethral sphincter reflex technique in the setting of the necessary
        surgical sacrifice of sacral nerve roots.
      - >-
        [YEAR_RANGE] 2020-2024 [TEXT] BACKGROUND: Limited data are available on
        the appropriate choice of blood pressure management strategy for
        patients with acute basilar artery occlusion assessed by the standard
        deviation (SD). Multivariate logistic models were used to investigate
        the association between BPV, the primary outcome (futile recanalization,
        90-day modified Rankin Scale score 3-6), and the secondary outcome
        (30-day mortality). Subgroup analysis was performed as a sensitivity
        test. RESULTS: Futile recanalization occurred in 60 (56 %) patients,
        while 26 (24 %) patients died within 30 days. In the fully adjusted
        model, MAP SD was associated with a higher risk of futile recanalization
        (OR adj=1.36, per 1 mmHg increase, 95 % CI: 1.09-1.69, P=0.006) and
        30-day mortality (OR adj=1.56, per 1 mmHg increase, 95 % CI: 1.20-2.04,
        P=0.001). A significant interaction between MAP SD and the lack of
        hypertension history on futile recanalization (P<0.05) was observed.
        CONCLUSIONS: Among recanalized acute BAO ischemic patients, higher blood
        pressure variability during the first 24 h after MT was associated with
        worse outcomes. This association was stronger in patients without a
        history of hypertension.

SentenceTransformer

This is a sentence-transformers model trained on the parquet dataset. It maps sentences & paragraphs to a 512-dimensional dense vector space and can be used for semantic textual similarity, semantic search, paraphrase mining, text classification, clustering, and more.

Model Details

Model Description

  • Model Type: Sentence Transformer
  • Maximum Sequence Length: 512 tokens
  • Output Dimensionality: 512 tokens
  • Similarity Function: Cosine Similarity
  • Training Dataset:
    • parquet

Model Sources

Full Model Architecture

SentenceTransformer(
  (0): Transformer({'max_seq_length': 512, 'do_lower_case': False}) with Transformer model: BertModel 
  (1): Pooling({'word_embedding_dimension': 512, 'pooling_mode_cls_token': False, 'pooling_mode_mean_tokens': True, 'pooling_mode_max_tokens': False, 'pooling_mode_mean_sqrt_len_tokens': False, 'pooling_mode_weightedmean_tokens': False, 'pooling_mode_lasttoken': False, 'include_prompt': True})
)

Usage

Direct Usage (Sentence Transformers)

First install the Sentence Transformers library:

pip install -U sentence-transformers

Then you can load this model and run inference.

from sentence_transformers import SentenceTransformer

# Download from the 🤗 Hub
model = SentenceTransformer("pankajrajdeo/Bioformer-8L-UMLS-Pubmed-ST-TCE-Epoch-1")
# Run inference
sentences = [
    '[YEAR_RANGE] 2020-2024 [TEXT] Intraoperative Monitoring of the External Urethral Sphincter Reflex: A Novel Adjunct to Bulbocavernosus Reflex Neuromonitoring for Protecting the Sacral Neural Pathways Responsible for Urination, Defecation and Sexual Function.',
    '[YEAR_RANGE] 2020-2024 [TEXT] PURPOSE: Intraoperative bulbocavernosus reflex neuromonitoring has been utilized to protect bowel, bladder, and sexual function, providing a continuous functional assessment of the somatic sacral nervous system during surgeries where it is at risk. Bulbocavernosus reflex data may also provide additional functional insight, including an evaluation for spinal shock, distinguishing upper versus lower motor neuron injury (conus versus cauda syndromes) and prognosis for postoperative bowel and bladder function. Continuous intraoperative bulbocavernosus reflex monitoring has been utilized to provide the surgeon with an ongoing functional assessment of the anatomical elements involved in the S2-S4 mediated reflex arc including the conus, cauda equina and pudendal nerves. Intraoperative bulbocavernosus reflex monitoring typically includes the electrical activation of the dorsal nerves of the genitals to initiate the afferent component of the reflex, followed by recording the resulting muscle response using needle electromyography recordings from the external anal sphincter. METHODS: Herein we describe a complementary and novel technique that includes recording electromyography responses from the external urethral sphincter to monitor the external urethral sphincter reflex. Specialized foley catheters embedded with recording electrodes have recently become commercially available that provide the ability to perform intraoperative external urethral sphincter muscle recordings. RESULTS: We describe technical details and the potential utility of incorporating external urethral sphincter reflex recordings into existing sacral neuromonitoring paradigms to provide redundant yet complementary data streams. CONCLUSIONS: We present two illustrative neurosurgical oncology cases to demonstrate the utility of the external urethral sphincter reflex technique in the setting of the necessary surgical sacrifice of sacral nerve roots.',
    '[YEAR_RANGE] 2020-2024 [TEXT] Early menarche has been associated with adverse health outcomes, such as depressive symptoms. Discovering effect modifiers across these conditions in the pediatric population is a constant challenge. We tested whether movement behaviours modified the effect of the association between early menarche and depression symptoms among adolescents. This cross-sectional study included 2031 females aged 15-19 years across all Brazilian geographic regions. Data were collected using a self-administered questionnaire; 30.5% (n = 620) reported having experienced menarche before age 12 years (that is, early menarche). We used the Patient Health Questionnaire (PHQ-9) to evaluate depressive symptoms. Accruing any moderate-vigorous physical activity during leisure time, limited recreational screen time, and having good sleep quality were the exposures investigated. Adolescents who experienced early menarche and met one (B: -4.45, 95% CI: (-5.38, -3.51)), two (B: -6.07 (-7.02, -5.12)), or three (B: -6.49 (-7.76, -5.21)), and adolescents who experienced not early menarche and met one (B: -5.33 (-6.20; -4.46)), two (B: -6.12 (-6.99; -5.24)), or three (B: -6.27 (-7.30; -5.24)) of the movement behaviour targets had lower PHQ-9 scores for depression symptoms than adolescents who experienced early menarche and did not meet any of the movement behaviours. The disparities in depressive symptoms among the adolescents (early menarche versus not early menarche) who adhered to all three target behaviours were not statistically significant (B: 0.41 (-0.19; 1.01)). Adherence to movement behaviours modified the effect of the association between early menarche and depression symptoms.',
]
embeddings = model.encode(sentences)
print(embeddings.shape)
# [3, 512]

# Get the similarity scores for the embeddings
similarities = model.similarity(embeddings, embeddings)
print(similarities.shape)
# [3, 3]

Training Details

Training Dataset

parquet

  • Dataset: parquet
  • Size: 26,147,930 training samples
  • Columns: anchor and positive
  • Approximate statistics based on the first 1000 samples:
    anchor positive
    type string string
    details
    • min: 16 tokens
    • mean: 45.85 tokens
    • max: 137 tokens
    • min: 31 tokens
    • mean: 268.19 tokens
    • max: 512 tokens
  • Samples:
    anchor positive
    [YEAR_RANGE] 1880-1884 [TEXT] ADDRESS OF COL. GARRICK MALLERY, U. S. ARMY. [YEAR_RANGE] 1880-1884 [TEXT] It may be conceded that after man had all his present faculties, he did not choose between the adoption of voice and gesture, and never with those faculties, was in a state where the one was used, to the absolute exclusion of the other. The epoch, however, to which our speculations relate is that in which he had not reached the present symmetric development of his intellect and of his bodily organs, and the inquiry is: Which mode of communication was earliest adopted to his single wants and informed intelligence? With the voice he could imitate distinictively but few sounds of nature, while with gesture he could exhibit actions, motions, positions, forms, dimensions, directions and distances, with their derivations and analogues. It would seem from this unequal division of capacity that oral speech remained rudimentary long after gesture had become an efficient mode of communication. With due allowance for all purely imitative sounds, and for the spontaneous action of vocal organs under excitement, it appears that the connection between ideas and words is only to be explained by a compact between speaker and hearer which supposes the existence of a prior mode of communication. This was probably by gesture. At least we may accept it as a clew leading out of the labyrinth of philological confusion, and regulating the immemorial quest of man's primitive speech.
    [YEAR_RANGE] 1880-1884 [TEXT] How TO OBTAIN THE BRAIN OF THE CAT. [YEAR_RANGE] 1880-1884 [TEXT] How to obtain the Brain of the Cat, (Wilder).-Correction: Page 158, second column, line 7, "grains," should be "grams;" page 159, near middle of 2nd column, "successily," should be "successively;" page 161, the number of Flower's paper is 3.
    [YEAR_RANGE] 1880-1884 [TEXT] DOLBEAR ON THE NATURE AND CONSTITUTION OF MATTER. [YEAR_RANGE] 1880-1884 [TEXT] Mr. Dopp desires to make the following correction in his paper in the last issue: "In my article on page 200 of "Science", the expression and should have been and being the velocity of light.
  • Loss: MultipleNegativesRankingLoss with these parameters:
    {
        "scale": 20.0,
        "similarity_fct": "cos_sim"
    }
    

Evaluation Dataset

parquet

  • Dataset: parquet
  • Size: 26,147,930 evaluation samples
  • Columns: anchor and positive
  • Approximate statistics based on the first 1000 samples:
    anchor positive
    type string string
    details
    • min: 15 tokens
    • mean: 31.78 tokens
    • max: 78 tokens
    • min: 16 tokens
    • mean: 299.97 tokens
    • max: 512 tokens
  • Samples:
    anchor positive
    [YEAR_RANGE] 2020-2024 [TEXT] Solubility and thermodynamics of mesalazine in aqueous mixtures of poly ethylene glycol 200/600 at 293.2-313.2K. [YEAR_RANGE] 2020-2024 [TEXT] In this study, the solubility of mesalazine was investigated in binary solvent mixtures of poly ethylene glycols 200/600 and water at temperatures ranging from 293.2K to 313.2K. The solubility of mesalazine was determined using a shake-flask method, and its concentrations were measured using a UV-Vis spectrophotometer. The obtained solubility data were analyzed using mathematical models including the van't Hoff, Jouyban-Acree, Jouyban-Acree-van't Hoff, mixture response surface, and modified Wilson models. The experimental data obtained for mesalazine dissolution encompassed various thermodynamic properties, including ΔG°, ΔH°, ΔS°, and TΔS°. These properties offer valuable insights into the energetic aspects of the dissolution process and were calculated based on the van't Hoff equation.
    [YEAR_RANGE] 2020-2024 [TEXT] Safety and efficacy of remimazolam versus propofol during EUS: a multicenter randomized controlled study. [YEAR_RANGE] 2020-2024 [TEXT] BACKGROUND AND AIMS: Propofol, a widely used sedative in GI endoscopic procedures, is associated with cardiorespiratory suppression. Remimazolam is a novel ultrashort-acting benzodiazepine sedative with rapid onset and minimal cardiorespiratory depression. This study compared the safety and efficacy of remimazolam and propofol during EUS procedures. METHODS: A multicenter randomized controlled study was conducted between October 2022 and March 2023 in patients who underwent EUS procedures. Patients were randomly assigned to receive either remimazolam or propofol as a sedative agent. The primary endpoint was cardiorespiratory adverse events.
    [YEAR_RANGE] 2020-2024 [TEXT] Ultrasound-Guided Vs Non-Guided Prolotherapy for Internal Derangement of Temporomandibular Joint. A Randomized Clinical Trial. [YEAR_RANGE] 2020-2024 [TEXT] OBJECTIVES: This randomized clinical trial study aims to compare ultrasound-guided versus non-guided Dextrose 10% injections in patients suffering from internal derangement in the temporomandibular joint (TMJ). MATERIAL AND METHODS: The study population included 22 patients and 43 TMJs suffering from unilateral or bilateral TMJ painful clicking, magnetic resonance imaging (MRI) proved disc displacement with reduction (DDWR), refractory to or failed conservative treatment. The patients were divided randomly into two groups (non-guided and ultrasound (US)-guided groups). The procedure involved injection of 2 mL solution of a mixture of 0.75 mL 0.9% normal saline solution, 0.3 mL 2% lidocaine and 0.75 mL dextrose 10% using a 25G needle in the joint and 1 mL intramuscular injection to the masseter muscle at the most tender point. The Visual Analogue Score (VAS) was used to compare joint pain intensity over four different periods, beginning with pre-injection, 1-, 2-, and 6-months postinjection. RESULTS: Twenty-two patients 5 males (n = 5/22, 22.7%) and 17 females (n = 17/22, 77.2%) were included in this study. The mean age was 27.3 ± 7.4 years (30.2 ± 7.0) for the non-guided group and 24.3 ± 6.9 for the US-guided group. The dextrose injection reduced intensity over time in both groups with statistically significant improvement (P value <.05) at 2 and 6 months in both groups. There was no statistically significant difference in VAS assessment between both groups. CONCLUSION: Intra-articular injection of dextrose 10% for patients with painful clicking and DDWR resulted in reduced pain intensity in both US-guided and non-guided groups with significant symptomatic improvement over time in both groups. US guidance allowed accurate anatomical localization and safe procedure with a single joint puncture.
  • Loss: MultipleNegativesRankingLoss with these parameters:
    {
        "scale": 20.0,
        "similarity_fct": "cos_sim"
    }
    

Training Hyperparameters

Non-Default Hyperparameters

  • eval_strategy: steps
  • per_device_train_batch_size: 128
  • learning_rate: 2e-05
  • num_train_epochs: 1
  • max_steps: 194066
  • log_level: info
  • fp16: True
  • dataloader_num_workers: 16
  • load_best_model_at_end: True
  • resume_from_checkpoint: True

All Hyperparameters

Click to expand
  • overwrite_output_dir: False
  • do_predict: False
  • eval_strategy: steps
  • prediction_loss_only: True
  • per_device_train_batch_size: 128
  • per_device_eval_batch_size: 8
  • per_gpu_train_batch_size: None
  • per_gpu_eval_batch_size: None
  • gradient_accumulation_steps: 1
  • eval_accumulation_steps: None
  • torch_empty_cache_steps: None
  • learning_rate: 2e-05
  • weight_decay: 0.0
  • adam_beta1: 0.9
  • adam_beta2: 0.999
  • adam_epsilon: 1e-08
  • max_grad_norm: 1.0
  • num_train_epochs: 1
  • max_steps: 194066
  • lr_scheduler_type: linear
  • lr_scheduler_kwargs: {}
  • warmup_ratio: 0.0
  • warmup_steps: 0
  • log_level: info
  • log_level_replica: warning
  • log_on_each_node: True
  • logging_nan_inf_filter: True
  • save_safetensors: True
  • save_on_each_node: False
  • save_only_model: False
  • restore_callback_states_from_checkpoint: False
  • no_cuda: False
  • use_cpu: False
  • use_mps_device: False
  • seed: 42
  • data_seed: None
  • jit_mode_eval: False
  • use_ipex: False
  • bf16: False
  • fp16: True
  • fp16_opt_level: O1
  • half_precision_backend: auto
  • bf16_full_eval: False
  • fp16_full_eval: False
  • tf32: None
  • local_rank: 0
  • ddp_backend: None
  • tpu_num_cores: None
  • tpu_metrics_debug: False
  • debug: []
  • dataloader_drop_last: False
  • dataloader_num_workers: 16
  • dataloader_prefetch_factor: None
  • past_index: -1
  • disable_tqdm: False
  • remove_unused_columns: True
  • label_names: None
  • load_best_model_at_end: True
  • ignore_data_skip: False
  • fsdp: []
  • fsdp_min_num_params: 0
  • fsdp_config: {'min_num_params': 0, 'xla': False, 'xla_fsdp_v2': False, 'xla_fsdp_grad_ckpt': False}
  • fsdp_transformer_layer_cls_to_wrap: None
  • accelerator_config: {'split_batches': False, 'dispatch_batches': None, 'even_batches': True, 'use_seedable_sampler': True, 'non_blocking': False, 'gradient_accumulation_kwargs': None}
  • deepspeed: None
  • label_smoothing_factor: 0.0
  • optim: adamw_torch
  • optim_args: None
  • adafactor: False
  • group_by_length: False
  • length_column_name: length
  • ddp_find_unused_parameters: None
  • ddp_bucket_cap_mb: None
  • ddp_broadcast_buffers: False
  • dataloader_pin_memory: True
  • dataloader_persistent_workers: False
  • skip_memory_metrics: True
  • use_legacy_prediction_loop: False
  • push_to_hub: False
  • resume_from_checkpoint: True
  • hub_model_id: None
  • hub_strategy: every_save
  • hub_private_repo: False
  • hub_always_push: False
  • gradient_checkpointing: False
  • gradient_checkpointing_kwargs: None
  • include_inputs_for_metrics: False
  • eval_do_concat_batches: True
  • fp16_backend: auto
  • push_to_hub_model_id: None
  • push_to_hub_organization: None
  • mp_parameters:
  • auto_find_batch_size: False
  • full_determinism: False
  • torchdynamo: None
  • ray_scope: last
  • ddp_timeout: 1800
  • torch_compile: False
  • torch_compile_backend: None
  • torch_compile_mode: None
  • dispatch_batches: None
  • split_batches: None
  • include_tokens_per_second: False
  • include_num_input_tokens_seen: False
  • neftune_noise_alpha: None
  • optim_target_modules: None
  • batch_eval_metrics: False
  • eval_on_start: False
  • eval_use_gather_object: False
  • batch_sampler: batch_sampler
  • multi_dataset_batch_sampler: proportional

Training Logs

Click to expand
Epoch Step Training Loss Validation Loss
0.0000 1 5.6379 -
0.0052 1000 0.6085 -
0.0103 2000 0.1263 -
0.0155 3000 0.1246 -
0.0206 4000 0.1225 -
0.0258 5000 0.0909 -
0.0309 6000 0.1011 -
0.0361 7000 0.0879 -
0.0412 8000 0.0858 -
0.0464 9000 0.0854 -
0.0515 10000 0.1016 -
0.0567 11000 0.0919 -
0.0618 12000 0.066 -
0.0670 13000 0.0947 -
0.0721 14000 0.1017 -
0.0773 15000 0.0622 -
0.0824 16000 0.1529 -
0.0876 17000 0.065 -
0.0928 18000 0.104 -
0.0979 19000 0.0626 -
0.1031 20000 0.1228 -
0.1082 21000 0.0681 -
0.1134 22000 0.1211 -
0.1185 23000 0.0608 -
0.1237 24000 0.0733 -
0.1288 25000 0.0587 -
0.1340 26000 0.1249 -
0.1391 27000 0.0662 -
0.1443 28000 0.1328 -
0.1494 29000 0.0647 -
0.1546 30000 0.1371 -
0.1597 31000 0.0603 -
0.1649 32000 0.1005 -
0.1700 33000 0.1037 -
0.1752 34000 0.0688 -
0.1804 35000 0.138 -
0.1855 36000 0.0648 -
0.1907 37000 0.0709 -
0.1958 38000 0.1214 -
0.2010 39000 0.0728 -
0.2061 40000 0.1218 -
0.2113 41000 0.0804 -
0.2164 42000 0.0682 -
0.2216 43000 0.1122 -
0.2267 44000 0.0692 -
0.2319 45000 0.0777 -
0.2370 46000 0.0947 -
0.2422 47000 0.0623 -
0.2473 48000 0.0785 -
0.2525 49000 0.0862 -
0.2576 50000 0.0703 -
0.2628 51000 0.0614 -
0.2679 52000 0.063 -
0.2731 53000 0.086 -
0.2783 54000 0.0763 -
0.2834 55000 0.0536 -
0.2886 56000 0.0634 -
0.2937 57000 0.0598 -
0.2989 58000 0.063 -
0.3040 59000 0.057 -
0.3092 60000 0.0733 -
0.3143 61000 0.0447 -
0.3195 62000 0.0504 -
0.3246 63000 0.0558 -
0.3298 64000 0.0669 -
0.3349 65000 0.0664 -
0.3401 66000 0.0519 -
0.3452 67000 0.0396 -
0.3504 68000 0.0531 -
0.3555 69000 0.069 -
0.3607 70000 0.0793 -
0.3659 71000 0.0873 -
0.3710 72000 0.034 -
0.3762 73000 0.0428 -
0.3813 74000 0.0536 -
0.3865 75000 0.0433 -
0.3916 76000 0.1024 -
0.3968 77000 0.051 -
0.4019 78000 0.0672 -
0.4071 79000 0.0343 -
0.4122 80000 0.0597 -
0.4174 81000 0.074 -
0.4225 82000 0.0421 -
0.4277 83000 0.0463 -
0.4328 84000 0.0651 -
0.4380 85000 0.0292 -
0.4431 86000 0.0403 -
0.4483 87000 0.0459 -
0.4535 88000 0.0705 -
0.4586 89000 0.0577 -
0.4638 90000 0.0462 -
0.4689 91000 0.0342 -
0.4741 92000 0.0402 -
0.4792 93000 0.0472 -
0.4844 94000 0.0472 -
0.4895 95000 0.0843 -
0.4947 96000 0.031 -
0.4998 97000 0.0347 -
0.5050 98000 0.0326 -
0.5101 99000 0.0349 -
0.5153 100000 0.0276 -
0.5204 101000 0.0412 -
0.5256 102000 0.0445 -
0.5307 103000 0.0232 -
0.5359 104000 0.0301 -
0.5411 105000 0.0268 -
0.5462 106000 0.0215 -
0.5514 107000 0.0538 -
0.5565 108000 0.0475 -
0.5617 109000 0.0302 -
0.5668 110000 0.0397 -
0.5720 111000 0.0438 -
0.5771 112000 0.0416 -
0.5823 113000 0.0289 -
0.5874 114000 0.0374 -
0.5926 115000 0.0514 -
0.5977 116000 0.0321 -
0.6029 117000 0.0759 -
0.6080 118000 0.0433 -
0.6132 119000 0.0362 -
0.6183 120000 0.041 -
0.6235 121000 0.0306 -
0.6286 122000 0.0407 -
0.6338 123000 0.0393 -
0.6390 124000 0.0478 -
0.6441 125000 0.0429 -
0.6493 126000 0.0521 -
0.6544 127000 0.0442 -
0.6596 128000 0.0428 -
0.6647 129000 0.0346 -
0.6699 130000 0.027 -
0.6750 131000 0.0219 -
0.6802 132000 0.0417 -
0.6853 133000 0.0376 -
0.6905 134000 0.0341 -
0.6956 135000 0.0304 -
0.7008 136000 0.0375 -
0.7059 137000 0.0352 -
0.7111 138000 0.0413 -
0.7162 139000 0.0346 -
0.7214 140000 0.0437 -
0.7266 141000 0.0447 -
0.7317 142000 0.0335 -
0.7369 143000 0.0287 -
0.7420 144000 0.0271 -
0.7472 145000 0.0295 -
0.7523 146000 0.0238 -
0.7575 147000 0.03 -
0.7626 148000 0.0369 -
0.7678 149000 0.0351 -
0.7729 150000 0.0302 -
0.7781 151000 0.0369 -
0.7832 152000 0.0374 -
0.7884 153000 0.0298 -
0.7935 154000 0.0387 -
0.7987 155000 0.0344 -
0.8038 156000 0.0374 -
0.8090 157000 0.0338 -
0.8142 158000 0.0317 -
0.8193 159000 0.0378 -
0.8245 160000 0.0375 -
0.8296 161000 0.0276 -
0.8348 162000 0.0238 -
0.8399 163000 0.0178 -
0.8451 164000 0.0226 -
0.8502 165000 0.0233 -
0.8554 166000 0.0183 -
0.8605 167000 0.0253 -
0.8657 168000 0.0232 -
0.8708 169000 0.0252 -
0.8760 170000 0.0258 -
0.8811 171000 0.0256 -
0.8863 172000 0.0285 -
0.8914 173000 0.0279 -
0.8966 174000 0.0237 -
0.9018 175000 0.0277 -
0.9069 176000 0.0245 -
0.9121 177000 0.0282 -
0.9172 178000 0.0248 -
0.9224 179000 0.0212 -
0.9275 180000 0.0199 -
0.9327 181000 0.0236 -
0.9378 182000 0.0246 -
0.9430 183000 0.0225 -
0.9481 184000 0.0228 -
0.9533 185000 0.0235 -
0.9584 186000 0.0226 -
0.9636 187000 0.0201 -
0.9687 188000 0.0201 -
0.9739 189000 0.0221 -
0.9790 190000 0.022 -
0.9842 191000 0.0359 -
0.9893 192000 0.0242 -
0.9945 193000 0.0192 -
0.9997 194000 0.0208 -
1.0000 194066 - 0.0007

Framework Versions

  • Python: 3.12.2
  • Sentence Transformers: 3.2.1
  • Transformers: 4.44.2
  • PyTorch: 2.5.0
  • Accelerate: 1.0.1
  • Datasets: 3.0.2
  • Tokenizers: 0.19.1

Citation

BibTeX

Sentence Transformers

@inproceedings{reimers-2019-sentence-bert,
    title = "Sentence-BERT: Sentence Embeddings using Siamese BERT-Networks",
    author = "Reimers, Nils and Gurevych, Iryna",
    booktitle = "Proceedings of the 2019 Conference on Empirical Methods in Natural Language Processing",
    month = "11",
    year = "2019",
    publisher = "Association for Computational Linguistics",
    url = "https://arxiv.org/abs/1908.10084",
}

MultipleNegativesRankingLoss

@misc{henderson2017efficient,
    title={Efficient Natural Language Response Suggestion for Smart Reply},
    author={Matthew Henderson and Rami Al-Rfou and Brian Strope and Yun-hsuan Sung and Laszlo Lukacs and Ruiqi Guo and Sanjiv Kumar and Balint Miklos and Ray Kurzweil},
    year={2017},
    eprint={1705.00652},
    archivePrefix={arXiv},
    primaryClass={cs.CL}
}