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Author Details

Russ B Altman
Stanford University
1982
521
80
Timothy Clark (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36394254Gene set proximity analysis: expanding gene set enrichment analysis through learned geometric embeddings, with drug-repurposing applications in COVID-19.Bioinformatics2023
37561511Genetic Correlations Among Corneal Biophysical Parameters and Anthropometric Traits.Transl Vis Sci Technol2023
37857935Integrative analyses highlight functional regulatory variants associated with neuropsychiatric diseases.Nat Genet2023
37905033Explainable protein function annotation using local structure embeddings.bioRxiv2023
37703349Stronger regulation of AI in biomedicine.Sci Transl Med2023
38060381A mitochondrial inside-out iron-calcium signal reveals drug targets for Parkinson's disease.Cell Rep2023
37732608A Holy Grail - The Prediction of Protein Structure.N Engl J Med2023
36519247COLLAPSE: A representation learning framework for identification and characterization of protein structural sites.Protein Sci2023
36469791POPDx: an automated framework for patient phenotyping across 392 246 individuals in the UK Biobank study.J Am Med Inform Assoc2023
36830756Using GPT-3 to Build a Lexicon of Drugs of Abuse Synonyms for Social Media Pharmacovigilance.Biomolecules2023
34849568Challenges and opportunities in network-based solutions for biological questions.Brief Bioinform2022
35817308Contexts and contradictions: a roadmap for computational drug repurposing with knowledge inference.Brief Bioinform2022
36742369A <i>cis</i>-regulatory lexicon of DNA motif combinations mediating cell-type-specific gene regulation.Cell Genom2022
36204824A network paradigm predicts drug synergistic effects using downstream protein-protein interactions.CPT Pharmacometrics Syst Pharmacol2022
35865358Recommendations for achieving interoperable and shareable medical data in the USA.Commun Med (Lond)2022
36343260Functional genomics of OCTN2 variants informs protein-specific variant effect predictor for Carnitine Transporter Deficiency.Proc Natl Acad Sci U S A2022
34890132Training data composition affects performance of protein structure analysis algorithms.Pac Symp Biocomput2022
32978778PharmGKB Tutorial for Pharmacogenomics of Drugs Potentially Used in the Context of COVID-19.Clin Pharmacol Ther2021
33492663A New Era in Pharmacovigilance: Toward Real-World Data and Digital Monitoring.Clin Pharmacol Ther2021
33544718Modeling drug response using network-based personalized treatment prediction (NetPTP) with applications to inflammatory bowel disease.PLoS Comput Biol2021
33486067Repurposing biomedical informaticians for COVID-19.J Biomed Inform2021
33737208Search and visualization of gene-drug-disease interactions for pharmacogenomics and precision medicine research using GeneDive.J Biomed Inform2021
33784977Large-scale labeling and assessment of sex bias in publicly available expression data.BMC Bioinformatics2021
33691016Drug Response Pharmacogenetics for 200,000 UK Biobank Participants.Pac Symp Biocomput2021
33798442Opportunities and challenges for the computational interpretation of rare variation in clinically important genes.Am J Hum Genet2021
34673524Quantifying the Severity of Adverse Drug Reactions Using Social Media: Network Analysis.J Med Internet Res2021
34548483Leveraging the Cell Ontology to classify unseen cell types.Nat Commun2021
34541463PhenClust, a standalone tool for identifying trends within sets of biological phenotypes using semantic similarity and the Unified Medical Language System metathesaurus.JAMIA Open2021
34185318Genomewide Association Studies in Pharmacogenomics.Clin Pharmacol Ther2021
34016708Analyzing the vast coronavirus literature with CoronaCentral.Proc Natl Acad Sci U S A2021
33237584Pharmacogenetics at Scale: An Analysis of the UK Biobank.Clin Pharmacol Ther2021
32873964Sex-specific genetic effects across biomarkers.Eur J Hum Genet2021
31504375Pharmacogenomic polygenic response score predicts ischaemic events and cardiovascular mortality in clopidogrel-treated patients.Eur Heart J Cardiovasc Pharmacother2020
32100936Pharmacogenomics in Asian Subpopulations and Impacts on Commonly Prescribed Medications.Clin Transl Sci2020
31797637Pathway and network embedding methods for prioritizing psychiatric drugs.Pac Symp Biocomput2020
31797632PGxMine: Text mining for curation of PharmGKB.Pac Symp Biocomput2020
31797619A Literature-Based Knowledge Graph Embedding Method for Identifying Drug Repurposing Opportunities in Rare Diseases.Pac Symp Biocomput2020
31851125PharmGKB summary: sertraline pathway, pharmacokinetics.Pharmacogenet Genomics2020
31851124PharmGKB summary: very important pharmacogene information for CACNA1S.Pharmacogenet Genomics2020
33142667Variant Interpretation in Current Pharmacogenetic Testing.J Pers Med2020
33137098Transfer learning enables prediction of CYP2D6 haplotype function.PLoS Comput Biol2020
33398279Analyzing the vast coronavirus literature with CoronaCentral.bioRxiv2020
33106874OrderRex clinical user testing: a randomized trial of recommender system decision support on simulated cases.J Am Med Inform Assoc2020
33077966MARS: discovering novel cell types across heterogeneous single-cell experiments.Nat Methods2020
32634869Extending TextAE for annotation of non-contiguous entities.Genomics Inform2020
32968711Gaussian Embedding for Large-scale Gene Set Analysis.Nat Mach Intell2020
32960230Geographic Distribution of US Cohorts Used to Train Deep Learning Algorithms.JAMA2020
32727913Scientific considerations for global drug development.Sci Transl Med2020
32364237Classifying non-small cell lung cancer types and transcriptomic subtypes using convolutional neural networks.J Am Med Inform Assoc2020
32187155PharmGKB summary: lamotrigine pathway, pharmacokinetics and pharmacodynamics.Pharmacogenet Genomics2020
  • 1 - 50 of 521

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Collaborators

Teri E Klein
Stanford University
Co-authored papers 161
Michelle Whirl-Carrillo
Stanford University
Co-authored papers 37
Li Gong
Stanford University
Co-authored papers 28
Julie A Johnson
Department of Pharmacotherapy and Translational Research, University of Florida
Co-authored papers 18
Kathleen M Giacomini
University of California San Francisco
Co-authored papers 15
Richard M Weinshilboum
Mayo Clinic
Co-authored papers 15
Ellen M McDonagh
European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 15
Dan M Roden
Vanderbilt University Medical Center
Co-authored papers 15
Daniel L Rubin
Stanford University.
Co-authored papers 13
Nicholas P Tatonetti
Columbia Universtiy College of Physicians and Surgeons
Co-authored papers 13
Howard L McLeod
Center for Precision Medicine and Functional Genomics, Utah Tech University
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Michael Snyder
Stanford University
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Soumya Raychaudhuri
Brigham and Women's Hospital and Harvard Medical School
Co-authored papers 11
Mark J Ratain
University of Chicago
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Euan A Ashley
Stanford University
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Atul J Butte
Bakar Computational Health Sciences Institute, University of California san francisco
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Konrad J Karczewski
Broad Institute of MIT and Harvard
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Mary V Relling
Departments of Pharmaceutical Sciences.
Co-authored papers 10
Alan R Shuldiner
University of Maryland School of Medicine
Co-authored papers 10
Michiaki Kubo
Co-authored papers 10
Alain Laederach
University of North Carolina at Chapel Hill
Co-authored papers 9
Jonathan H Chen
Stanford University School of Medicine
Co-authored papers 9
Isaac S Kohane
Harvard Medical School
Co-authored papers 8
Liewei Wang
Mayo Clinic
Co-authored papers 8
Diane E Oliver
Stanford University
Co-authored papers 8
Mark Gerstein
Yale University
Co-authored papers 7
Sean D Mooney
University of Washington
Co-authored papers 7
Larisa H Cavallari
Department of Pharmacotherapy and Translational Research, University of Florida
Co-authored papers 7
Carlos D Bustamante
Stanford University
Co-authored papers 7
Nigam H Shah
Stanford University
Co-authored papers 6
Release 1.2