Russ Altman

Q: What Schools Are Affiliated With Russ Altman

Russ Altman is affiliated with the following schools: Stanford University, University of Toronto, Harvard University

Russ Altman's AcademicInfluence.com Rankings

Russ Altman

Computer Science

#1650

World Rank

#1708

Historical Rank

#797

USA Rank

Informatics

World Rank

Historical Rank

USA Rank

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Computer Science

Russ Altman's Degrees

Doctorate Medicine Stanford University
PhD Medical Information Sciences Stanford University

Why Is Russ Altman Influential?

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According to Wikipedia, Russ Biagio Altman is an American professor of bioengineering, genetics, medicine, and biomedical data science and past chairman of the bioengineering department at Stanford University. Education Altman holds an A.B. from Harvard College in 1983, a Ph.D. in medical information sciences from Stanford in 1989 and M.D. from Stanford Medical School in 1990. After his internship at Stanford, he became board certified in 1991 in internal medicine and in clinical informatics in 2014. After a year of post-doctoral research, he joined the faculty as assistant professor in 1992. He became full professor in 2004, and was chair of the department of bioengineering from 2007 to June 2012. He currently is the Kenneth Fong Professor of Engineering at Stanford, and an advisor to the Chan Zuckerberg Biohub. As of 2018, Altman was a founding co-editor of the Annual Review of Biomedical Data Science.

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Russ Altman's Published Works

Number of citations in a given year to any of this author's works

Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author

Published Works

Missing value estimation methods for DNA microarrays (2001) (3484)
Estimation of the warfarin dose with clinical and pharmacogenetic data. (2009) (1522)
Diversity of gene expression in adenocarcinoma of the lung (2001) (1320)
Guidelines for investigating causality of sequence variants in human disease (2014) (1160)
Personal Omics Profiling Reveals Dynamic Molecular and Medical Phenotypes (2012) (1128)
Doxorubicin pathways: pharmacodynamics and adverse effects (2011) (1073)
The Chemical Genomic Portrait of Yeast: Uncovering a Phenotype for All Genes (2008) (975)
On the Opportunities and Risks of Foundation Models (2021) (938)
Principal components analysis to summarize microarray experiments: application to sporulation time series. (1999) (854)
Clinical assessment incorporating a personal genome (2010) (692)
Predicting non-small cell lung cancer prognosis by fully automated microscopic pathology image features (2016) (653)
A Bayesian framework for combining heterogeneous data sources for gene function prediction (in Saccharomyces cerevisiae) (2003) (597)
Data-Driven Prediction of Drug Effects and Interactions (2012) (591)
Machine learning in chemoinformatics and drug discovery. (2018) (509)
Human induced pluripotent stem cell–derived cardiomyocytes recapitulate the predilection of breast cancer patients to doxorubicin-induced cardiotoxicity (2016) (502)
PharmGKB: the Pharmacogenetics Knowledge Base (2002) (397)
Integrating genotype and phenotype information: an overview of the PharmGKB project (2001) (383)
Metformin pathways: pharmacokinetics and pharmacodynamics (2012) (365)
Clinical interpretation and implications of whole-genome sequencing. (2014) (365)
Cloud-based simulations on Google Exacycle reveal ligand-modulation of GPCR activation pathways (2013) (358)
Very important pharmacogene summary: ABCB1 (MDR1, P-glycoprotein). (2011) (351)
Nonparametric methods for identifying differentially expressed genes in microarray data (2002) (338)
Genomic Research and Human Subject Privacy (2004) (329)
Investigating hypoxic tumor physiology through gene expression patterns (2003) (319)
SAFA: semi-automated footprinting analysis software for high-throughput quantification of nucleic acid footprinting experiments. (2005) (316)
The incidentalome: a threat to genomic medicine. (2006) (304)
Coarse-grained modeling of large RNA molecules with knowledge-based potentials and structural filters. (2009) (301)
Bioinformatics challenges for personalized medicine (2011) (259)
Computational analysis of Plasmodium falciparum metabolism: organizing genomic information to facilitate drug discovery. (2004) (242)
PharmGKB: the Pharmacogenomics Knowledge Base. (2013) (237)
Genetic variants associated with warfarin dose in African-American individuals: a genome-wide association study (2013) (232)
Research Paper: Creating an Online Dictionary of Abbreviations from MEDLINE (2002) (232)
Challenges in the clinical application of whole-genome sequencing (2010) (231)
Valproic acid pathway: pharmacokinetics and pharmacodynamics (2013) (230)
WS-SNPs&GO: a web server for predicting the deleterious effect of human protein variants using functional annotation (2013) (225)
Associating genes with gene ontology codes using a maximum entropy analysis of biomedical literature. (2002) (217)
Web-scale pharmacovigilance: listening to signals from the crowd (2013) (211)
Collective judgment predicts disease-associated single nucleotide variants (2013) (190)
PharmGKB summary: pathways of acetaminophen metabolism at the therapeutic versus toxic doses (2015) (186)
Cytochrome P450 2C9-CYP2C9. (2010) (186)
From pharmacogenomic knowledge acquisition to clinical applications: the PharmGKB as a clinical pharmacogenomic biomarker resource. (2011) (184)
PharmGKB summary: cyclosporine and tacrolimus pathways (2013) (180)
A novel signal detection algorithm for identifying hidden drug-drug interactions in adverse event reports (2012) (177)
CYP2D6 Genotype and Adjuvant Tamoxifen: Meta-Analysis of Heterogeneous Study Populations (2013) (176)
PharmGKB: A worldwide resource for pharmacogenomic information (2018) (169)
Eukaryotic regulatory element conservation analysis and identification using comparative genomics. (2004) (168)
Whole-genome expression analysis: challenges beyond clustering. (2001) (167)
Graph Convolutional Neural Networks for Predicting Drug-Target Interactions (2018) (166)
Predicting HLA class II antigen presentation through integrated deep learning (2019) (163)
Pharmacogenomics: Challenges and Opportunities (2006) (162)
Modelling biological processes using workflow and Petri Net models (2002) (161)
Clopidogrel pathway. (2010) (153)
Phased Whole-Genome Genetic Risk in a Family Quartet Using a Major Allele Reference Sequence (2011) (149)
Basic microarray analysis: grouping and feature reduction. (2001) (146)
Research Paper: Using Petri Net Tools to Study Properties and Dynamics of Biological Systems (2004) (146)
PharmGKB summary: very important pharmacogene information for cytochrome P450, family 2, subfamily C, polypeptide 19 (2012) (140)
PharmGKB summary: very important pharmacogene information for cytochrome P450, family 2, subfamily C, polypeptide 8 (2012) (133)
Informatics confronts drug-drug interactions. (2013) (130)
PharmGKB: the pharmacogenetics and pharmacogenomics knowledge base (2004) (130)
Reconstruction of the Mouse Otocyst and Early Neuroblast Lineage at Single-Cell Resolution (2014) (129)
Discovery and Explanation of Drug-Drug Interactions via Text Mining (2011) (128)
Pharmspresso: a text mining tool for extraction of pharmacogenomic concepts and relationships from full text (2009) (127)
Finding haplotype tagging SNPs by use of principal components analysis. (2004) (126)
Characterizing the microenvironment surrounding protein sites (1995) (126)
Cytochrome P450 2D6. (2009) (124)
Using text to build semantic networks for pharmacogenomics (2010) (123)
Celecoxib pathways: pharmacokinetics and pharmacodynamics. (2012) (122)
PharmGKB summary: very important pharmacogene information for CYP3A5. (2012) (121)
Health-information altruists--a potentially critical resource. (2005) (119)
Pharmacogenomics and bioinformatics: PharmGKB. (2010) (118)
PharmGKB: a logical home for knowledge relating genotype to drug response phenotype (2007) (117)
PharmGKB summary: methotrexate pathway. (2011) (117)
Challenges for biomedical informatics and pharmacogenomics. (2002) (115)
RNAML: a standard syntax for exchanging RNA information. (2002) (112)
The pharmacogenetics and pharmacogenomics knowledge base: accentuating the knowledge (2007) (112)
The International SSRI Pharmacogenomics Consortium (ISPC): a genome-wide association study of antidepressant treatment response (2015) (111)
GAPSCORE: finding gene and protein names one word at a time (2004) (111)
Improving the prediction of disease-related variants using protein three-dimensional structure (2011) (110)
Knowledge acquisition, consistency checking and concurrency control for Gene Ontology (GO) (2003) (110)
Text mining for biology - the way forward: opinions from leading scientists (2008) (109)
Average core structures and variability measures for protein families: application to the immunoglobulins. (1995) (107)
Independent component analysis: Mining microarray data for fundamental human gene expression modules (2010) (105)
Codeine and morphine pathway. (2009) (104)
High-throughput single-nucleotide structural mapping by capillary automated footprinting analysis (2008) (103)
Emerging scientific applications in data mining (2002) (100)
PharmGKB summary: ibuprofen pathways (2015) (99)
A curriculum for bioinformatics: the time is ripe (1998) (99)
Clinical implementation of pharmacogenomics: overcoming genetic exceptionalism. (2010) (98)
Robust recognition of zinc binding sites in proteins (2007) (98)
RiboWeb: An Ontology-Based System for Collaborative Molecular Biology (1999) (98)
Potential T-cell and B-cell Epitopes of 2019-nCoV (2020) (96)
3D deep convolutional neural networks for amino acid environment similarity analysis (2017) (95)
PharmGKB: Understanding the Effects of Individual Genetic Variants (2008) (94)
VKORC1 pharmacogenomics summary. (2010) (93)
PharmGKB summary: very important pharmacogene information for N-acetyltransferase 2. (2014) (91)
Geographic Distribution of US Cohorts Used to Train Deep Learning Algorithms. (2020) (91)
PharmGKB summary: tamoxifen pathway, pharmacokinetics (2013) (90)
PharmGKB summary: very important pharmacogene information for UGT1A1 (2014) (89)
Using text analysis to identify functionally coherent gene groups. (2002) (89)
PharmGKB summary: fluoropyrimidine pathways. (2010) (89)
WebFEATURE: an interactive web tool for identifying and visualizing functional sites on macromolecular structures (2003) (88)
Very important pharmacogene summary ADRB2 (2010) (88)
Time to Organize the Bioinformatics Resourceome (2005) (87)
Platelet aggregation pathway. (2011) (87)
Large-scale extraction of gene interactions from full-text literature using DeepDive (2015) (87)
Choosing SNPs using feature selection (2005) (86)
Structural inference of native and partially folded RNA by high-throughput contact mapping (2008) (85)
PharmGKB summary: caffeine pathway (2012) (84)
PharmGKB summary: very important pharmacogene information for CYP1A2 (2012) (84)
The ethics of characterizing difference: guiding principles on using racial categories in human genetics (2008) (83)
Recent progress in automatically extracting information from the pharmacogenomic literature. (2010) (83)
Sequence-specific 1H NMR assignments and secondary structure in solution of Escherichia coli trp repressor. (1990) (83)
Association of Omics Features with Histopathology Patterns in Lung Adenocarcinoma. (2017) (82)
Protein sequence design with a learned potential (2020) (82)
Turning limited experimental information into 3D models of RNA. (2010) (81)
A global network of biomedical relationships derived from text (2018) (79)
PROTEAN: Deriving Protein Structure from Constraints (1986) (78)
The RNA Ontology Consortium: an open invitation to the RNA community. (2006) (78)
Semiautomated and rapid quantification of nucleic acid footprinting and structure mapping experiments (2008) (77)
Extending and evaluating a warfarin dosing algorithm that includes CYP4F2 and pooled rare variants of CYP2C9 (2010) (76)
MScanner: a classifier for retrieving Medline citations (2008) (75)
Thiopurine pathway. (2010) (74)
Genetics. Genomic research and human subject privacy. (2004) (74)
MARS: discovering novel cell types across heterogeneous single-cell experiments (2020) (73)
A method for inferring medical diagnoses from patient similarities (2013) (73)
Decaying relevance of clinical data towards future decisions in data-driven inpatient clinical order sets (2017) (73)
Selective serotonin reuptake inhibitors pathway. (2009) (72)
Examining the Use of Real‐World Evidence in the Regulatory Process (2019) (71)
PharmGKB summary: tramadol pathway. (2014) (71)
Predicting RNA Structure by Multiple Template Homology Modeling (2010) (70)
A new disease-specific machine learning approach for the prediction of cancer-causing missense variants. (2011) (68)
Assessment of the Radiation Effects of Cardiac CT Angiography Using Protein and Genetic Biomarkers. (2015) (68)
White Paper: Training the Next Generation of Informaticians: The Impact of "BISTI" and Bioinformatics - A Report from the American College of Medical Informatics (2004) (67)
Using binning to maintain confidentiality of medical data (2002) (66)
Bioinformatics and variability in drug response: a protein structural perspective (2012) (66)
The Simbios National Center: Systems Biology in Motion (2008) (66)
A call for the creation of personalized medicine databases (2006) (65)
PharmGKB summary: carbamazepine pathway (2011) (64)
Predicting allosteric communication in myosin via a pathway of conserved residues. (2007) (63)
Recognizing protein binding sites using statistical descriptions of their 3D environments. (1998) (63)
The computational analysis of scientific literature to define and recognize gene expression clusters. (2003) (63)
Automating Data Acquisition into Ontologies from Pharmacogenetics Relational Data Sources Using Declarative Object Definitions and XML (2001) (63)
Pacific symposium on biocomputing 2006 (2005) (63)
Extracting and characterizing gene-drug relationships from the literature. (2004) (62)
Biomedical term mapping databases (2004) (60)
Predicting drug side-effects by chemical systems biology (2009) (60)
A literature-based method for assessing the functional coherence of a gene group (2003) (60)
Fast Flexible Modeling of RNA Structure Using Internal Coordinates (2011) (60)
Using Multiple Microenvironments to Find Similar Ligand-Binding Sites: Application to Kinase Inhibitor Binding (2011) (59)
PharmGKB summary: very important pharmacogene information for CYP2B6 (2010) (59)
Standardized biogeographic grouping system for annotating populations in pharmacogenetic research (2018) (59)
Identifying phenotypic signatures of neuropsychiatric disorders from electronic medical records. (2013) (59)
Human Germline CRISPR-Cas Modification: Toward a Regulatory Framework (2015) (59)
PharmGKB summary: phenytoin pathway (2012) (58)
Large scale study of protein domain distribution in the context of alternative splicing. (2003) (58)
PharmGKB: the pharmacogenetics and pharmacogenomics knowledge base. (2005) (57)
Distinct contribution of electrostatics, initial conformational ensemble, and macromolecular stability in RNA folding (2007) (57)
Genetic variant in folate homeostasis is associated with lower warfarin dose in African Americans. (2014) (56)
PharmGKB very important pharmacogene: SLCO1B1. (2010) (55)
Environmental and State-Level Regulatory Factors Affect the Incidence of Autism and Intellectual Disability (2014) (55)
Chapter 7: Pharmacogenomics (2012) (55)
Including Biological Literature Improves Homology Search (2000) (54)
The FEATURE framework for protein function annotation: modeling new functions, improving performance, and extending to novel applications (2008) (54)
Pharmacogenetics at scale: An analysis of the UK Biobank (2020) (54)
The solution structures of Escherichia coli trp repressor and trp aporepressor at an intermediate resolution. (1991) (54)
PharmGKB summary: gemcitabine pathway (2014) (54)
Predicting inpatient clinical order patterns with probabilistic topic models vs conventional order sets (2016) (54)
A Literature-Based Knowledge Graph Embedding Method for Identifying Drug Repurposing Opportunities in Rare Diseases (2019) (54)
Knowledge-based instantiation of full atomic detail into coarse-grain RNA 3D structural models (2009) (53)
Genome Wide Analysis of Drug-Induced Torsades de Pointes: Lack of Common Variants with Large Effect Sizes (2013) (53)
Classifying non-small cell lung cancer types and transcriptomic subtypes using convolutional neural networks (2020) (53)
PharmGKB summary: mycophenolic acid pathway (2014) (53)
PharmGKB summary: venlafaxine pathway (2014) (52)
Efficient Algorithms to Explore Conformation Spaces of Flexible Protein Loops (2007) (52)
Bioinformatics in support of molecular medicine (1998) (52)
Achieving high-sensitivity for clinical applications using augmented exome sequencing (2015) (52)
RIBOWEB: Linking Structural Computations to a Knowledge Base of Published Experimental Data (1997) (51)
Databases in the area of pharmacogenetics (2011) (51)
Application of Information Technology: A Statistical Approach to Scanning the Biomedical Literature for Pharmacogenetics Knowledge (2004) (51)
Cooperative transcription factor associations discovered using regulatory variation (2011) (49)
Improving the explainability of Random Forest classifier - user centered approach (2018) (49)
Very important pharmacogene summary for VDR (2012) (49)
A deep learning framework to predict binding preference of RNA constituents on protein surface (2019) (48)
A systematic comparison of three structure determination methods from NMR data: Dependence upon quality and quantity of data (1992) (48)
Pharmacogenomic Polygenic Response Score Predicts Ischemic Events and Cardiovascular Mortality in Clopidogrel-Treated Patients. (2019) (47)
PharmGKB summary: citalopram pharmacokinetics pathway (2011) (47)
Neurotoxicity of generic anesthesia agents in infants and children: an orphan research question in search of a sponsor. (2015) (47)
ATOM3D: Tasks On Molecules in Three Dimensions (2020) (46)
Computational methods for defining the allowed conformational space of 16S rRNA based on chemical footprinting data. (1996) (46)
Improving structure-based function prediction using molecular dynamics. (2009) (46)
Viewpoint: The Interactions Between Clinical Informatics and Bioinformatics: A Case Study (2000) (45)
Improving data and knowledge management to better integrate health care and research (2013) (45)
Content-based microarray search using differential expression profiles (2010) (45)
A research roadmap for next-generation sequencing informatics (2016) (45)
OrderRex: clinical order decision support and outcome predictions by data-mining electronic medical records (2016) (44)
MutDB: annotating human variation with functionally relevant data (2003) (43)
Platinum pathway. (2009) (43)
PharmGKB summary: Macrolide antibiotic pathway, pharmacokinetics/pharmacodynamics (2017) (43)
Local kinetic measures of macromolecular structure reveal partitioning among multiple parallel pathways from the earliest steps in the folding of a large RNA molecule. (2006) (43)
Pathway analysis of genome-wide data improves warfarin dose prediction (2013) (43)
PharmGKB and the International Warfarin Pharmacogenetics Consortium: the changing role for pharmacogenomic databases and single‐drug pharmacogenetics (2008) (42)
Integration and publication of heterogeneous text-mined relationships on the Semantic Web (2011) (42)
Very important pharmacogene summary: thiopurine S-methyltransferase. (2010) (41)
Pharmacogenomics Clinical Annotation Tool (PharmCAT) (2019) (41)
High precision protein functional site detection using 3D convolutional neural networks (2018) (40)
Evidence for Clinical Implementation of Pharmacogenomics in Cardiac Drugs. (2015) (40)
Bisphosphonates pathway. (2011) (39)
MODELING BIOLOGICAL PROCESSES USING WORKFLOW AND PETRI NET MODELS (2001) (39)
PharmGKB: An Integrated Resource of Pharmacogenomic Data and Knowledge (2008) (39)
LPFC: An internet library of protein family core structures (1997) (39)
Are predicted structures good enough to preserve functional sites? (1999) (38)
Determining the Genomic Locations of Repetitive DNA Sequences with a Whole-Genome Microarray: IS6110 in Mycobacterium tuberculosis (2002) (38)
Identifying Druggable Targets by Protein Microenvironments Matching: Application to Transcription Factors (2014) (37)
K-Means for Parallel Architectures Using All-Prefix-Sum Sorting and Updating Steps (2013) (37)
PharmGKB summary: methylene blue pathway (2013) (37)
Ontology Development for a Pharmacogenetics Knowledge Base (2001) (37)
Relating Essential Proteins to Drug Side-Effects Using Canonical Component Analysis: A Structure-Based Approach (2015) (36)
Microenvironment analysis and identification of magnesium binding sites in RNA. (2003) (36)
Learning the Structure of Biomedical Relationships from Unstructured Text (2015) (36)
Commentaries on “Informatics and Medicine: From Molecules to Populations” (2008) (36)
Etoposide pathway. (2009) (36)
PharmGKB summary: very important pharmacogene information for cytochrome P-450, family 2, subfamily A, polypeptide 6 (2012) (36)
Ranking Adverse Drug Reactions With Crowdsourcing (2015) (36)
Working toward precision medicine: Predicting phenotypes from exomes in the Critical Assessment of Genome Interpretation (CAGI) challenges (2017) (36)
Heuristic refinement method for determination of solution structure of proteins from nuclear magnetic resonance data. (1989) (36)
PharmGKB summary: uric acid-lowering drugs pathway, pharmacodynamics (2014) (36)
A dynamic map for learning, communicating, navigating and improving therapeutic development (2017) (36)
Homology modeling of TMPRSS2 yields candidate drugs that may inhibit entry of SARS-CoV-2 into human cells. (2020) (35)
New strategies for the determination of macromolecular structure in solution. (1986) (35)
Choosing Snps Using Feature Selection (2006) (35)
Recognizing Complex, Asymmetric Functional Sites in Protein Structures Using a Bayesian Scoring Function (2003) (34)
PharmGKB summary: very important pharmacogene information for G6PD (2012) (34)
Drug Targets for Plasmodium falciparum: a post-genomic review/survey. (2006) (34)
Tools for loading MEDLINE into a local relational database (2004) (34)
The International SSRI Pharmacogenomics Consortium (ISPC): a genome-wide association study of antidepressant treatment response (2016) (33)
Using ODIN for a PharmGKB revalidation experiment (2012) (33)
PharmGKB summary: clozapine pathway, pharmacokinetics (2018) (32)
Challenges for Intelligent Systems in Biology (2001) (32)
Informatics in the care of patients: ten notable challenges. (1997) (32)
Clustering protein environments for function prediction: finding PROSITE motifs in 3D (2007) (31)
Using "big data" to dissect clinical heterogeneity. (2015) (31)
Using the radial distributions of physical features to compare amino acid environments and align amino acid sequences. (1997) (31)
Coherent Functional Modules Improve Transcription Factor Target Identification, Cooperativity Prediction, and Disease Association (2014) (31)
Extracting Subject Demographic Information From Abstracts of Randomized Clinical Trial Reports (2007) (31)
Knowledge-based Fragment Binding Prediction (2014) (30)
CAMPAIGN: an open-source library of GPU-accelerated data clustering algorithms (2011) (30)
Constraints on Biological Mechanism from Disease Comorbidity Using Electronic Medical Records and Database of Genetic Variants (2016) (30)
PharmGKB summary: Efavirenz pathway, pharmacokinetics (2015) (30)
Automated Construction of Structural Motifs for Predicting Functional Sites on Protein Structures (2002) (30)
Atrial Fibrillation Burden Signature and Near-Term Prediction of Stroke: A Machine Learning Analysis. (2019) (29)
Structural characterization of proteins using residue environments (2005) (29)
Identification of promoter regions in the human genome by using a retroviral plasmid library-based functional reporter gene assay. (2003) (29)
Modeling and Analyzing Biomedical Processes using Workflow/Petri Net Models and Tools (2004) (29)
Reuse with PROTÉGÉ-II: from elevators to ribosomes (1995) (29)
iTools: A Framework for Classification, Categorization and Integration of Computational Biology Resources (2008) (29)
Editorial: Building successful biological databases (2004) (28)
Association of the Polygenic Scores for Personality Traits and Response to Selective Serotonin Reuptake Inhibitors in Patients with Major Depressive Disorder (2018) (28)
Sex-specific genetic effects across biomarkers (2019) (28)
Mining biochemical information: lessons taught by the ribosome. (2002) (28)
PharmGKB summary: isoniazid pathway, pharmacokinetics (2016) (28)
AI in Medicine: The Spectrum of Challenges from Managed Care to Molecular Medicine (1999) (28)
PharmGKB summary: sorafenib pathways (2017) (27)
Heuristic refinement method for the derivation of protein solution structures: validation on cytochrome b562 (1988) (26)
Interpretome: A Freely Available, Modular, and Secure Personal Genome Interpretation Engine (2011) (25)
Computing disease incidence, prevalence and comorbidity from electronic medical records (2016) (25)
Transfer learning enables prediction of CYP2D6 haplotype function (2020) (25)
Prediction of calcium-binding sites by combining loop-modeling with machine learning (2009) (25)
Constrained Global Optimization for Estimating Molecular Structure from Atomic Distances (2001) (25)
PharmGKB summary: succinylcholine pathway, pharmacokinetics/pharmacodynamics (2015) (25)
Using a measure of structural variation to define a core for the globins (1995) (24)
Reuse, CORBA, and knowledge-based systems (1998) (24)
Opportunities and challenges for the computational interpretation of rare variation in clinically important genes (2021) (24)
Pharmacogenomics: will the promise be fulfilled? (2011) (24)
Missing Value Estimation (2003) (24)
SLC19A1 pharmacogenomics summary (2010) (24)
Application of a Dynamic Map for Learning, Communicating, Navigating, and Improving Therapeutic Development (2017) (24)
Sequence to Medical Phenotypes: A Framework for Interpretation of Human Whole Genome DNA Sequence Data (2015) (24)
Finding an Average Core Structure: Application to the Globins (1994) (24)
Development of an automated assessment tool for MedWatch reports in the FDA adverse event reporting system (2017) (23)
Pharmacogenomics in Asian Subpopulations and Impacts on Commonly Prescribed Medications (2020) (23)
RNA molecules with conserved catalytic cores but variable peripheries fold along unique energetically optimized pathways. (2011) (23)
Vascular endothelial growth factor pathway. (2010) (23)
PharmGKB summary: cytochrome P450, family 2, subfamily J, polypeptide 2: CYP2J2. (2011) (23)
Automated Physician Order Recommendations and Outcome Predictions by Data-Mining Electronic Medical Records (2014) (23)
The Pioglitazone Trek via Human PPAR Gamma: From Discovery to a Medicine at the FDA and Beyond (2018) (23)
Constraint Satisfaction Techniques for Modeling Large Complexes: Application to the Central Domain of 16S Ribosomal RNA (1994) (23)
Pocket similarity identifies selective estrogen receptor modulators as microtubule modulators at the taxane site (2019) (23)
PharmGKB summary: very important pharmacogene information for SLC22A1 (2014) (22)
Probabilistic Structure Calculations: A Three-Dimensional tRNA Structure from Sequence Correlation Data (1993) (22)
Genomewide Association Study of Platelet Reactivity and Cardiovascular Response in Patients Treated With Clopidogrel: A Study by the International Clopidogrel Pharmacogenomics Consortium (2020) (22)
Combining Molecular Dynamics and Machine Learning to Improve Protein Function Recognition (2007) (22)
Integrating systems biology sources illuminates drug action (2014) (22)
A probabilistic pathway score (PROPS) for classification with applications to inflammatory bowel disease (2017) (22)
Expanding a radiology lexicon using contextual patterns in radiology reports (2018) (22)
Genome‐wide and candidate gene approaches of clopidogrel efficacy using pharmacodynamic and clinical end points—Rationale and design of the International Clopidogrel Pharmacogenomics Consortium (ICPC) (2017) (22)
Indexing pharmacogenetic knowledge on the World Wide Web. (2003) (22)
Representing genetic sequence data for pharmacogenomics: an evolutionary approach using ontological and relational models (2002) (22)
Taxane pathway. (2009) (21)
Towards a standard query model for sharing decision-support applications. (1994) (21)
Data re-identification: societal safeguards. (2013) (21)
Very important pharmacogene summary: sulfotransferase 1A1. (2009) (21)
A New Era in Pharmacovigilance: Toward Real‐World Data and Digital Monitoring (2021) (21)
Mice lacking the β2 adrenergic receptor have a unique genetic profile before and after focal brain ischaemia (2012) (20)
Opportunities for developing therapies for rare genetic diseases: focus on gain-of-function and allostery (2017) (20)
PharmGKB summary: very important pharmacogene information for CYP4F2 (2015) (20)
Using imperfect secondary structure predictions to improve molecular structure computations (1999) (20)
Coplanar and coaxial orientations of RNA bases and helices. (2007) (20)
Classifying Non-Small Cell Lung Cancer Histopathology Types and Transcriptomic Subtypes using Convolutional Neural Networks (2019) (20)
Data-driven human transcriptomic modules determined by independent component analysis (2018) (20)
Pharmacogenomics and big genomic data: from lab to clinic and back again. (2018) (20)
A functional analysis of disease-associated mutations in the androgen receptor gene. (2003) (19)
Confidentiality in Genome Research (2006) (19)
The dependence of a protein solution structure on the quality of the input NMR data. Application of the double-iterated Kalman filter technique to oxytocin (1990) (19)
New feature: pathways and important genes from PharmGKB. (2009) (19)
Towards a Cytokine-Cell Interaction Knowledgebase of the Adaptive Immune System (2008) (19)
An integrative method for scoring candidate genes from association studies: application to warfarin dosing (2010) (19)
Variations in the Binding Pocket of an Inhibitor of the Bacterial Division Protein FtsZ across Genotypes and Species (2015) (19)
Introduction to Translational Bioinformatics Collection (2012) (19)
Maternal–fetal and neonatal pharmacogenomics: a review of current literature (2010) (19)
Sophia: Providing Basic Knowledge Services with a Common DBMS (1998) (19)
RNA secondary structure as a reusable interface to biological information resources. (1997) (19)
Ribosomal dynamics inferred from variations in experimental measurements. (2003) (18)
The utility of general purpose versus specialty clinical databases for research: Warfarin dose estimation from extracted clinical variables (2010) (18)
The association of obesity and coronary artery disease genes with response to SSRIs treatment in major depression (2019) (18)
The Education Potential of the Pharmacogenetics and Pharmacogenomics Knowledge Base (PharmGKB) (2007) (18)
Updating a bibliography using the related articles function within PubMed (1998) (18)
Qualitative models of molecular function: linking genetic polymorphisms of tRNA to their functional sequelae (2002) (18)
The SeqFEATURE library of 3D functional site models: comparison to existing methods and applications to protein function annotation (2008) (18)
PharmGKB summary: voriconazole pathway, pharmacokinetics (2017) (18)
Effect of CYP4F2, VKORC1, and CYP2C9 in Influencing Coumarin Dose: A Single‐Patient Data Meta‐Analysis in More Than 15,000 Individuals (2019) (18)
PharmGKB summary: very important pharmacogene information for ABCG2 (2017) (18)
Biomedical informatics training at Stanford in the 21st century (2007) (17)
Building successful biological databases. (2004) (17)
Unifying single-cell annotations based on the Cell Ontology (2019) (17)
Shape-based models for interactive segmentation of medical images (1995) (17)
Characterizing Oriented Protein Structural Sites Using Biochemical Properties (1995) (17)
Sophia: a flexible, Web-based knowledge server (1999) (17)
PharmGKB summary: very important pharmacogene information for MT-RNR1 (2016) (17)
Hierarchical Organization of Molecular Structure Computations (1998) (17)
PharmGKB summary: dopamine receptor D2. (2011) (17)
PharmGKB summary: very important pharmacogene information for PTGS2 (2011) (16)
Remote thioredoxin recognition using evolutionary conservation and structural dynamics. (2011) (16)
PharmGKB summary: very important pharmacogene information for human leukocyte antigen B (2015) (16)
An ontology for Autism Spectrum Disorder (ASD) to infer ASD phenotypes from Autism Diagnostic Interview-Revised data (2015) (16)
Dynamically Evolving Clinical Practices and Implications for Predicting Medical Decisions (2016) (16)
Computational analysis of kinase inhibitor selectivity using structural knowledge (2018) (16)
ISMB-94 : proceedings : second International Conference on Intelligent Systems for Molecular Biology (1994) (16)
Pattern Recognition of Genomic Features with Microarrays: Site Typing of Mycobacterium Tuberculosis Strains (2000) (16)
A probabilistic approach to determining biological structure: integrating uncertain data sources (1995) (16)
Unmet needs: Research helps regulators do their jobs (2015) (15)
PharmGKB summary: oxycodone pathway, pharmacokinetics (2018) (15)
Leveraging the Cell Ontology to classify unseen cell types (2021) (15)
STAMS: STRING-assisted module search for genome wide association studies and application to autism (2016) (15)
Analyzing the vast coronavirus literature with CoronaCentral (2020) (15)
Chemical reaction vector embeddings: towards predicting drug metabolism in the human gut microbiome (2017) (15)
PharmGKB summary: very important pharmacogene information for the epidermal growth factor receptor (2013) (15)
Inclusion of Textual Documentation in the Analysis of Multidimensional Data Sets: Application to Gene Expression Data (2003) (14)
Lamprey: tracking users on the World Wide Web. (1996) (14)
Standardized Representations of the Literature: Combining Diverse Sources of Ribosomal Data (1997) (14)
PharmGKB summary: ifosfamide pathways, pharmacokinetics and pharmacodynamics (2014) (14)
Clinical evaluation incorporating a personal genome (2010) (14)
PharmGKB summary: very important pharmacogene information for GSTT1 (2012) (14)
Retro-2 protects cells from ricin toxicity by inhibiting ASNA1-mediated ER targeting and insertion of tail-anchored proteins (2019) (14)
Extraction of SNOMED concepts from medical record texts. (1994) (14)
Comparison of the NMR solution structures of cyclosporin A determined by different techniques (1991) (14)
High Precision Prediction of Functional Sites in Protein Structures (2014) (13)
PharmGKB summary: ivacaftor pathway, pharmacokinetics/pharmacodynamics (2017) (13)
PATH-SCAN: A Reporting Tool for Identifying Clinically Actionable Variants (2013) (13)
PharmGKB summary: lamotrigine pathway, pharmacokinetics and pharmacodynamics (2020) (13)
High Resolution Prediction of Calcium-Binding Sites in 3D Protein Structures Using FEATURE (2015) (13)
Defining bioinformatics and structural bioinformatics. (2003) (13)
Current Progress in Bioinformatics 2016 (2016) (13)
Methods for displaying macromolecular structural uncertainty: application to the globins. (1995) (13)
Extracting chemical reactions from text using Snorkel (2020) (13)
RedMed: Extending drug lexicons for social media applications (2019) (13)
Personalization in practice (2015) (13)
PharmGKB summary: very important pharmacogene information for angiotensin-converting enzyme (2010) (13)
A Probabilistic Algorithm for Calculating Structure: Borrowing from Simulated Annealing (1993) (12)
PharmGKB summary: sertraline pathway, pharmacokinetics (2019) (12)
PharmGKB summary: zidovudine pathway. (2012) (12)
Drug Response Pharmacogenetics for 200,000 UK Biobank Participants (2020) (12)
A Threat to Genomic Medicine (2006) (12)
Data-Mining Electronic Medical Records for Clinical Order Recommendations: Wisdom of the Crowd or Tyranny of the Mob? (2015) (12)
Genomewide Association Studies in Pharmacogenomics (2021) (12)
Identification of recurring protein structure microenvironments and discovery of novel functional sites around CYS residues (2010) (12)
Imputing gene expression to maximize platform compatibility (2016) (12)
Integrating large-scale genotype and phenotype data. (2006) (11)
Exclusion methods for the determination of protein structure from experimental data (1989) (11)
Parallel protein structure determination from uncertain data (1994) (11)
KCNH2 pharmacogenomics summary. (2010) (11)
Using Pre-existing Microarray Datasets to Increase Experimental Power: Application to Insulin Resistance (2010) (11)
Predicting venous thromboembolism risk from exomes in the Critical Assessment of Genome Interpretation (CAGI) challenges (2019) (11)
Biomarkers: Delivering on the expectation of molecularly driven, quantitative health (2018) (11)
PGxMine: Text mining for curation of PharmGKB (2019) (11)
PharmGKB: very important pharmacogene--HMGCR. (2011) (11)
Dynamic categorization: a method for decreasing information overload (1999) (11)
Calculation of the relative geometry of tRNAs in the ribosome from directed hydroxyl-radical probing data. (2000) (11)
PharmGKB summary: very important pharmacogene information for RYR1 (2016) (10)
PharmGKB summary: clobazam pathway, pharmacokinetics (2018) (10)
Improving the Prediction of Pharmacogenes Using Text-Derived Gene-Drug Relationships (2010) (10)
Predicting cancer drug response: advancing the DREAM. (2015) (10)
PathFX provides mechanistic insights into drug efficacy and safety for regulatory review and therapeutic development (2018) (10)
Pathway-based Approaches to Pharmacogenomics (2007) (10)
PharmGKB very important pharmacogene : SLCO 1 B 1 (2012) (10)
Using surface envelopes for discrimination of molecular models (2004) (10)
Shallow Representation Learning via Kernel PCA Improves QSAR Modelability. (2017) (10)
Model Formulation: Automated Diagnosis of Data-Model Conflicts Using Metadata (1999) (10)
An evaluation of the TransFER model for sharing clinical decision-support applications. (1996) (10)
Probabilistic constraint satisfaction with structural models: application to organ modeling by radial contours. (1993) (9)
Essential Characteristics of Pharmacogenomics Study Publications (2018) (9)
Antiestrogen pathway (aromatase inhibitor). (2009) (9)
Genetic nondiscrimination legislation: a critical prerequisite for pharmacogenomics data sharing. (2007) (9)
An “Omics” view of drug development (2004) (9)
Simbios: an NIH national center for physics-based simulation of biological structures (2012) (9)
PharmGKB summary: methylphenidate pathway, pharmacokinetics/pharmacodynamics (2019) (9)
Extraction of Genotype-Phenotype-Drug Relationships from Text: From Entity Recognition to Bioinformatics Application (2010) (9)
Population‐specific single‐nucleotide polymorphism confers increased risk of venous thromboembolism in African Americans (2016) (9)
2010 Translational bioinformatics year in review (2011) (8)
Systematic target function annotation of human transcription factors (2016) (8)
Mining for Clinical Expertise in (Undocumented) Order Sets to Power an Order Suggestion System (2013) (8)
Using machine learning to extract drug and gene relationships from text (2003) (8)
Using Metacomputing Tools to Facilitate Large Scale Analyses of Biological Databases (2000) (8)
Hubble2D6: A deep learning approach for predicting drug metabolic activity (2019) (8)
Large-scale labeling and assessment of sex bias in publicly available expression data (2020) (8)
Bridging the Representational Heterogeneity of Clinical Databases (1994) (8)
PharmGKB summary: pazopanib pathway, pharmacokinetics (2017) (8)
Cohort-specific imputation of gene expression improves prediction of warfarin dose for African Americans (2017) (8)
[28] Computational modeling of structural experimental data (2000) (8)
M-BISON: Microarray-based integration of data sources using networks (2008) (7)
Deep functional synthesis: a machine learning approach to gene functional enrichment (2019) (7)
GeneDive: A gene interaction search and visualization tool to facilitate precision medicine (2018) (7)
Gaussian Embedding for Large-scale Gene Set Analysis (2020) (7)
What is Biomedical Data Science and Do We Need an Annual Review of It? (2018) (7)
Computational Modeling of Structured Experimental Data (1999) (7)
OrderRex clinical user testing: a randomized trial of recommender system decision support on simulated cases (2020) (7)
Promises of text processing: natural language processing meets AI. (2002) (7)
#Science: The Potential and the Challenges of Utilizing Social Media and Other Electronic Communication Platforms in Health Care (2019) (7)
Biological and functional relevance of CASP predictions (2017) (7)
Computational functional genomics (2004) (7)
Partial Compilation of Strategic Knowledge (1987) (7)
Research Projects Supported by the University of California, San Francisco‐Stanford Center of Excellence in Regulatory Science and Innovation (2019) (7)
The state of the art in text mining and natural language processing for pharmacogenomics (2012) (7)
Reversals and limitations on high-intensity, life-sustaining treatments (2018) (7)
Teaching computers to read the pharmacogenomics literature ... so you don't have to. (2010) (7)
Structural insights into Pre-Translocation Ribosome Motions (2011) (7)
Scientific considerations for global drug development (2020) (6)
Inferring the semantic relationships of words within an ontology using random indexing: applications to pharmacogenomics (2013) (6)
A Formal model for bridging heterogeneous relational databases in clinical medicine (1996) (6)
Biocomputing '97 - Proceedings of the Pacific Symposium (1996) (6)
PharmGKB summary: abacavir pathway (2014) (6)
Challenges for Training Translational Researchers in the Era of Ubiquitous Data (2018) (6)
Methods for Building and Refining 3D Models of RNA (2012) (6)
3D deep convolutional neural networks for amino acid environment similarity analysis (2017) (6)
Principles of Pharmacogenetics and Pharmacogenomics: Contributors (2011) (6)
Using Molecular Features of Xenobiotics to Predict Hepatic Gene Expression Response (2013) (6)
Genetic sequence data for pharmacogenomics. (2003) (6)
Editorial: Current progress in Bioinformatics 2010 (2010) (6)
DrugOrchestra: Jointly predicting drug response, targets, and side effects via deep multi-task learning (2020) (5)
Constraining volume by matching the moments of a distance distribution (1996) (5)
Training the Next Generation of Quantitative Biologists in the Era of Big Data (2014) (5)
Transfer learning enables prediction ofCYP2D6haplotype function (2020) (5)
PharmGKB summary: very important pharmacogene information for CACNA1S (2019) (5)
Parallel hierarchical molecular structure estimation (1996) (5)
Probabilistic Constraint Satisfaction with Non-Gaussian Noise (1994) (5)
PharmGKB summary: very important pharmacogene information for CFTR (2015) (5)
Analyzing the vast coronavirus literature with CoronaCentral (2021) (5)
Edinburgh-Stanford TREC-2003 Genomics Track (2003) (5)
The heuristic refinement method for deriving solution structures of proteins (1986) (5)
Modeling drug response using network-based personalized treatment prediction (NetPTP) with applications to inflammatory bowel disease (2021) (5)
Abstract 15518: Novel SNPs Associated with Warfarin Dose in a Large Multicenter Cohort of African Americans: Genome Wide Association Study and Replication Results (2011) (5)
PROTEAN: A New Method for Deriving Solution Structures of Proteins (2007) (5)
Computational modeling of structural experimental data. (2000) (5)
A Surface Measure for Probabilistic Structural Computations (1998) (5)
MHCWeb: converting a WWW database into a knowledge-based collaborative environment (1998) (5)
Search and visualization of gene-drug-disease interactions for pharmacogenomics and precision medicine research using GeneDive (2021) (4)
Contexts and contradictions: a roadmap for computational drug repurposing with knowledge inference (2022) (4)
PharmGKB summary: atazanavir pathway, pharmacokinetics/pharmacodynamics (2018) (4)
PharmGKB summary: diuretics pathway, pharmacodynamics (2013) (4)
Statistical analysis of protein structures (1998) (4)
Usability of an Automated Recommender System for Clinical Order Entry (2016) (4)
Sex-specific genetic effects across biomarkers (2020) (4)
Distinct clinical phenotypes for Crohn’s disease derived from patient surveys (2021) (4)
The SimTK Framework for physics-based simulation of biological structures: preliminary design (2005) (4)
An Automated System for Generating Comparative Disease Profiles and Making Diagnoses (1998) (4)
Structural uncertainty of proteins in solution by NMR. A re-evaluation of the structure of theLac repressor headpiece (1993) (4)
Compositional characteristics of disordered regions in proteins (1996) (4)
Determination of Structural Uncertainty from NMR and Other Data: The Lac Repressor Headpiece (1989) (4)
Mendelian Disease Associations Reveal Novel Insights into Inflammatory Bowel Disease (2018) (4)
A Resource to Acquire and Summarize Pharmacogenetics Knowledge in the Literature (2004) (4)
Variant Interpretation in Current Pharmacogenetic Testing (2020) (3)
PathFXweb: a web application for identifying drug safety and efficacy phenotypes (2019) (3)
Building the Next Generation of Quantitative Biologists (2013) (3)
NMR and protein structure (1989) (3)
PharmGKB summary: Ondansetron and tropisetron pathways, pharmacokinetics and pharmacodynamics (2019) (3)
Genomics in the clinic: ethical and policy challenges in clinical next-generation sequencing programs at early adopter USA institutions. (2015) (3)
LPA and APOE are associated with statin selection in the UK Biobank (2020) (3)
Challenges for knowledge discovery in biology (2001) (3)
The International Society for Computational Biology 10th Anniversary (2007) (3)
Usability of a Machine-Learning Clinical Order Recommender System Interface for Clinical Decision Support and Physician Workflow (2020) (3)
Reuse with protege-II (1995) (3)
PharmGKB: Capturing knowledge to catalyze pharmacogenomics research (2006) (3)
How to improve data and knowledge management to better integrate healthcare and research (2013) (3)
CRISPRa screening with real world evidence identifies potassium channels as neuronal entry factors and druggable targets for SARS-CoV-2 (2021) (3)
Protein sequence design with a learned potential (2022) (3)
The expanding scope of bioinformatics: sequence analysis and beyond (2003) (3)
Pharmacogenomics in dermatology: tools for understanding gene-drug associations. (2019) (3)
Construction of disease-specific cytokine profiles by associating disease genes with immune responses (2021) (3)
Graphical style sheets: towards reusable representations of biomedical graphics (1998) (3)
A programming course in bioinformatics for computer and information science students. (1996) (3)
PharmGKB Tutorial for Pharmacogenomics of Drugs Potentially Used in the Context of COVID‐19 (2020) (3)
Quantifying the Severity of Adverse Drug Reactions Using Social Media: Network Analysis (2021) (3)
Flexible Analog Search with Kernel PCA Embedded Molecule Vectors (2017) (3)
Edinburgh-Stanford TREC 2003 Genomics Track: Notebook Paper (2003) (2)
Population-specific imputation of gene expression improves prediction of pharmacogenomic traits for African Americans (2017) (2)
Erratum: Diversity of gene expression in adenocarcinoma of the lung (Proceedings of the National Academy of Sciences of the United States of America (2001) 98 (13784-13789)) (2002) (2)
Probabilistic constraint satisfaction: application to radiosurgery. (1994) (2)
Correction: Time to Organize the Bioinformatics Resourceome (2006) (2)
Pharmacogenomics: The relevance of emerging genotyping technologies. (2006) (2)
702: Comprehensive maternal-fetal pharmacogenomics – a novel pharmacogenomic thumbprint (2009) (2)
Monitoring the opioid epidemic via social media discussions (2021) (2)
Pathway and network embedding methods for prioritizing psychiatric drugs (2019) (2)
The hierarchical organization of molecular structure computations (1998) (2)
Application of new informatics tools for identifying allosteric lead ligands of the c-Src kinase (2016) (2)
Challenges and opportunities in network-based solutions for biological questions (2021) (2)
Proceedings of the Pacific Symposium on Biocomputing '97. Maui, Hawaii, USA, 6-9 January 1997. (1997) (2)
Corrigendum: Cloud-based simulations on Google Exacycle reveal ligand modulation of GPCR activation pathways. (2015) (2)
GPD-Rxn Workshop : Genotype-Phenotype-Drug Relationship Extraction from Text (2009) (2)
Pacific symposium on biocomputing `97: Proceedings (1996) (2)
Pacific Symposium on Biocomputing '99, World Scientific, New Jersey; Pacific Symposium on Biocomputing '00, World Scientific, New Jersey; Pacific Symposium on Biocomputing '01, World Scientific, New Jersey (2003) (2)
Towards Clinical Bioinformatics: Redux 2015 (2016) (2)
The new peer review (2000) (2)
Potential Adverse Effects of Anesthesia in Children--Reply. (2015) (2)
A Heuristic Refinement for Spacial Constraint Satisfaction Problems (1987) (2)
In reply [7] (2006) (2)
Repurposing biomedical informaticians for COVID-19 (2021) (2)
Maria-I: A Deep-Learning Approach for Accurate Prediction of MHC Class I Tumor Neoantigen Presentation (2019) (2)
The Incidentalome—Reply (2006) (2)
Current progress in bioinformatics 2007 (2007) (2)
Biomedical computation at Stanford University: a larger umbrella for the future. (2000) (1)
Biomolecular Structure Estimation: A Case Study of Irregular Hierarchical Parallelism (1999) (1)
ISMB-95 -- Third international conference on intelligent systems for molecular biology: Proceedings (1995) (1)
Abstract 81: E2F4/p107 complex regulates chemotherapy resistance in human colorectal cancer stem cells (2017) (1)
Annual Progress in Bioinformatics 2006 (2006) (1)
Drug Response Pharmacogenetics for 200, 000 UK Biobank Participants (2020) (1)
Genotype-guided dosing of vitamin K antagonists. (2014) (1)
Biomedical Graph Visualizer for Identifying Drug Candidates (2020) (1)
Biocomputing 2006, Proceedings of the Pacific Symposium, Maui, Hawaii, USA, 3-7 January 2006 (2006) (1)
POPDx: an automated framework for patient phenotyping across 392 246 individuals in the UK Biobank study (2022) (1)
COLLAPSE: A representation learning framework for identification and characterization of protein structural sites (2022) (1)
Chapter 11 Statistical analysis of protein structures: Using environmental features for multiple purposes (1998) (1)
Proceedings of the Third International Conference on Intelligent Systems for Molecular Biology, Cambridge, United Kingdom, July 16-19, 1995 (1995) (1)
Molecular structure computation from multiple data sources (1999) (1)
Combining Simulation and Machine Learning to Recognize Function in 4D (2007) (1)
Response to Open Peer Commentaries on “Human Germline CRISPR-Cas Modification: Toward a Regulatory Framework” (2016) (1)
A Roadmap for Regulatory Science Research for Next Generation Sequencing Informatics (2016) (1)
Determination of Large Protein Structures from NMR Data: Definition of the Solution Structure of the TRP Repressor (1991) (1)
Web-Scale Pharmacovigilance in the Discovery of Pharmacological Effects and Toxicity (2015) (1)
Biocomputing 2015 - Proceedings of the Pacific Symposium (2015) (1)
Complexities of Managing Biomedical Information (2003) (1)
Faculty Opinions recommendation of Predicting protein structures with a multiplayer online game. (2012) (1)
A General Framework for Dose Optimization (2009) (1)
Predicting Non-Small Cell Lung Cancer Diagnosis and Prognosis by Fully Automated Microscopic Pathology Image Features (2017) (1)
A personalized and automated dbSNP surveillance system (2003) (1)
Extending TextAE for annotation of non-contiguous entities (2020) (1)
Physics-based simulation of biological structures (2006) (1)
Separating the Causes and Consequences in Disease Transcriptome (2016) (1)
Training data composition affects performance of protein structure analysis algorithms (2021) (1)
PharmGKB : A Resource to Link Genotype and Phenotype in Pharmacogenetics (2005) (1)
Quantifying the severity of adverse drug reactions using social media (2021) (1)
Artificial Intelligence Techniques and NMR Spectroscopy: Application to the Structure of Proteins in Solution (1990) (1)
GRep: Gene Set Representation via Gaussian Embedding (2019) (1)
Functional genomics of OCTN2 variants informs protein-specific variant effect predictor for Carnitine Transporter Deficiency (2022) (1)
Pacific Symposium on Biocomputing 2004: Hawaii, USA 6-10 January 2004 (2004) (1)
ViewFeature: Integrated Feature Analysis and Visualization (2000) (1)
Single-cell analysis of non-alcoholic fatty livers identifies a role for the constitutive androstane receptor (2022) (1)
Computing the Structure of Large Complexes : Applying Constraint Satisfaction Techniques to Modeling the 16 S Ribosomal RNA (1995) (1)
Collective judgment predicts disease-associated single nucleotide variants (2013) (1)
WS-SNPs&GO: a web server for predicting the deleterious effect of human protein variants using functional annotation (2013) (1)
Large-scale labeling and assessment of sex bias in publicly available expression data (2021) (1)
Scoring Functions Sensitive to Alignment Error Have a More Difficult Search: A Paradox for Threading (2002) (0)
Cohort-specific imputation of gene expression improves prediction of warfarin dose for African Americans (2017) (0)
Results Quantifying the variability of drug-gene descriptions in Medline sentences (2015) (0)
Pacific Symposium on Biocomputing 2000 : Honolulu, Hawaii, USA, 4-9 January, 2000 (1999) (0)
Automatic construction of 3D structural motifs for protein function prediction (2003) (0)
PharmGED : Pharmacogenetic effect database. Commentary (2007) (0)
Integrative Analysis of Functional Genomic Screening and Clinical Data Identifies a Protective Role for Spironolactone in Severe COVID-19 (2022) (0)
ATOM3D: Small Molecule Properties (SMP) Dataset (2021) (0)
The Many Meanings of Precision Medicine (2016) (0)
Faculty Opinions recommendation of Rare variants create synthetic genome-wide associations. (2012) (0)
Qualitative Knowledge Models in Functional Genomics and Proteomics (2006) (0)
Ieee Signal Processing Magazine Computational Functional Genomics (2001) (0)
Improving the specificity of biological signal detection from microarray data (2003) (0)
Inducing Novel Gene-Drug Interactions from the Biomedical Literature (2003) (0)
SUPPORTING STRUCTURAL COMPUTATIONS ON THE WEB : APPLICATION TO RIBOSOMAL MODELING (1997) (0)
Pathway analysis of genome-wide data improves warfarin dose prediction (2013) (0)
FRONT MATTER (2018) (0)
Faculty Opinions recommendation of In silico research in the era of cloud computing. (2012) (0)
Faculty Opinions recommendation of Do-it-yourself genetic testing. (2012) (0)
Preface (2019) (0)
Pacific Symposium on Biocomputing '99 : Mauna Lani, Hawaii, USA, 4-9 January, 1999 (1999) (0)
PharmGKB summary: peginterferon-&agr; pathway (2015) (0)
Faculty Opinions recommendation of Bioinformatical approaches to characterize intrinsically disordered/unstructured proteins. (2010) (0)
Text mining for pharmacogenomics (2008) (0)
Graphical style sheets: declarative, constraint-based display of biomedical domain graphics (2001) (0)
Expression Quantitative Trait Loci Analysis of Stable Warfarin Dose Identifies Novel Associations : Finding Signal within the Noise (2013) (0)
A Twentieth Anniversary Tribute to PSB (2014) (0)
Expanding the Autism Ontology to DSM-IV Criteria (2013) (0)
Using text to enhance the interpretation of large multi-dimensional data sets (2002) (0)
NIH revamp: real issue is resources (2011) (0)
ATOM3D: RNA Structure Ranking (RSR) Dataset (2021) (0)
ATOM3D: Protein-Protein Interactions (PPI) Dataset (2021) (0)
Decaying Relevance of Clinical Data when Predicting Future Decisions (2017) (0)
Towards Clinical Bioinformatics (2004) (0)
Automated Organization of Electronic Health Record Data by Probabilistic Topic Modeling to Inform Clinical Decision Making (2016) (0)
Proceedings of the Eighth International Conference on Intelligent Systems for Molecular Biology, August 19-23, 2000, La Jolla / San Diego, CA, USA (2000) (0)
Faculty Opinions recommendation of Bayesian approach to transforming public gene expression repositories into disease diagnosis databases. (2010) (0)
NIH Director Advisory Committee Task Force Report on Informatics (2015) (0)
An Introduction to PharmGKB: A Research Tool for Pharmacogenomics (2007) (0)
Learning the structure of biomedical relationships from unstructured text: supplementary files (2015) (0)
Bioinformatics (2000) (0)
Unraveling the Molecular Basis of Lung Adenocarcinoma Dedifferentiation and Prognosis by Integrating Omics and Histopathology (2018) (0)
Faculty Opinions recommendation of The genetic landscape of a cell. (2010) (0)
Quantifying the Severity of Adverse Drug Reactions Using Social Media: Network Analysis (Preprint) (2021) (0)
Proceedings of the Pacific Symposium on Biocomputing '98. Maui, Hawaii, USA. 4-9 January 1998. (1997) (0)
FRONT MATTER (2020) (0)
Systems Pharmacogenomics-Bridging the Gap (2012) (0)
Faculty Opinions recommendation of Drug off-target effects predicted using structural analysis in the context of a metabolic network model. (2012) (0)
"Doctors who ordered this also ordered..." Automated physician order recommendations and outcome predictions by data-mining electronic medical records (2014) (0)
Pacific Symposium on Biocomputing 2002 : Kauai, Hawaii, 3-7 January, 2002 (2001) (0)
Editorial: Annual progress in bioinformatics (2005) (0)
OP-JAMI170291 679..685 (2018) (0)
Editorial Garten & Altman Teaching computers to read the pharmacogenomics literature ... so you don ’ t have to Editorial at the Pharmacogenomics Knowledgebase ( PharmGKB (2010) (0)
lexicon of DNA motif combinations mediating cell-type-speci ﬁ c gene regulation (2022) (0)
Interview: Russ Altman speaks to Shreeya Nanda, Commissioning Editor. (2008) (0)
Introduction to ontologies in biomedicine: from powertools to assistants (2005) (0)
Pacific Symposium on Biocomputing 2001 : Mauna Lani, Hawaii, 3-7 January, 2001 (2000) (0)
BIOINFORMATICS Bioinformatics challenges for personalized medicine (2011) (0)
Understanding alternative splicing from the perspectives of regulatory mechanisms and functional consequences (2005) (0)
Comparative Genomics (2017) (0)
Bioinformatics (2013) (0)
Automated, scalable systems would reveal and help exploit the deeper meanings in scientific data, especially in biomedical engineering, telecommunications, geospatial exploration, and climate and Earth ecosystem modeling. (2002) (0)
Correspondence: Response to 'Use of an algorithm for identifying hidden drug-drug interactions in adverse event reports' by Gooden et al (2013) (0)
IN THE SPOTLIGHT Predicting Cancer Drug Response: Advancing the DREAM (2015) (0)
Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, August 14-17, 1994, Stanford University, Stanford, California, USA (1994) (0)
Editorial: Current progress in Bioinformatics 2012 (2012) (0)
gene – drug relationships n information extraction n information retrieval n machine learning n natural language processing n NLP n pharmacogenetics n pharmacogenomics n text mining (2010) (0)
ATOM3D: Ligand Binding Affinity (LBA) Dataset (2021) (0)
Special Paper - Introduction (2003) (0)
Guidelines for CYP 2 C 9 and VKORC 1 Genotypes and Warfarin Dosing – ONLINE SUPPLEMENT (2011) (0)
A new disease-specific machine learning approach for the prediction of cancer-causing SNPs (2010) (0)
Biocomputing 2007, Proceedings of the Pacific Symposium, Maui, Hawaii, USA, 3-7 January 2007 (2007) (0)
Chapter 14 – PharmGKB: The Pharmacogenomics Knowledgebase (2014) (0)
Principles of Pharmacogenetics and Pharmacogenomics: Introduction (2012) (0)
Multilingual translation for zero-shot biomedical classification using BioTranslator (2023) (0)
Biocomputing 2008, Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, 4-8 January 2008 (2008) (0)
Genome Analysis (2011) (0)
Challenges in Creating an Infrastructure for Physics-Based Simulation of Biological Structures (2005) (0)
Faculty Opinions recommendation of Collaboratively charting the gene-to-phenotype network of human congenital heart defects. (2012) (0)
Pacific Symposium on Biocomputing 2005 : Hawaii, USA, 4-8 January, 2005 (2005) (0)
Faculty Opinions recommendation of Structure of a beta1-adrenergic G-protein-coupled receptor. (2011) (0)
Standardized representations of the literature (1997) (0)
Proceedings of the third international workshop on Data and text mining in bioinformatics (2008) (0)
A cis-regulatory lexicon of DNA motif combinations mediating cell-type-specific gene regulation (2022) (0)
International Conference on Information and Knowledge Management, Proceedings: Foreword (2009) (0)
The NCBC Centers : Incubators for the Next Generation of Science and Scientists (2012) (0)
Author response: Retro-2 protects cells from ricin toxicity by inhibiting ASNA1-mediated ER targeting and insertion of tail-anchored proteins (2019) (0)
Pocket similarity identifies selective estrogen receptor modulators as microtubule modulators at the taxane site (2019) (0)
ATOM3D: Protein Structure Ranking (PSR) Dataset (2021) (0)
Covid Fast Fax: A system for real-time triage of Covid-19 case report faxes (2020) (0)
Faculty Opinions recommendation of Web-based, participant-driven studies yield novel genetic associations for common traits. (2012) (0)
A network paradigm predicts drug synergistic effects using downstream protein–protein interactions (2022) (0)
Genetic information and molecular pathways recapitulate psychiatric drug prescriptions and diagnoses (2020) (0)
Variation in the Binding Pocket of an Inhibitor of the Bacterial Division Protein FtsZ Across Genotypes, Nucleotide States, and Species (2014) (0)
ATOM3D: Mutation Stability Prediction (MSP) Dataset (2021) (0)
Opportunities and Challenges for Interpreting Rare Variation in Clinically Important Genes (2020) (0)
Year : 2012 Using ODIN for a PharmGKB revalidation experiment (2017) (0)
Using GPT-3 to Build a Lexicon of Drugs of Abuse Synonyms for Social Media Pharmacovigilance (2023) (0)
Recommendations for achieving interoperable and shareable medical data in the USA (2022) (0)
Editorial Board (1995) (0)
Mapping transcriptional heterogeneity and metabolic networks in fatty livers at single-cell resolution (2022) (0)
Can the Covid-19 Natural Experiment Teach Us About Care Value and System Preferences? (2021) (0)
An Iron-Calcium-Miro Axis Influences Parkinson’s Risk and Neurodegeneration (2023) (0)
From nut-2 to covid 19: What it teaches us?. the triple therapy for covid 19 (2020) (0)
Achieving high-sensitivity for clinical applications using augmented exome sequencing (2015) (0)
Investigating Ligand-Modulation of GPCR Activation Pathways (2014) (0)
Systematic target function annotation of human transcription factors (2018) (0)
Partial Compilation of Strategic Knowledge 1 (1999) (0)
Gene set proximity analysis: expanding gene set enrichment analysis through learned geometric embeddings, with drug-repurposing applications in COVID-19 (2022) (0)
Modeling Drug Combinatorial Effects in Inflammatory Bowel Disease (2018) (0)
PhenClust, a standalone tool for identifying trends within sets of biological phenotypes using semantic similarity and the Unified Medical Language System metathesaurus (2021) (0)
Using surface envelopes to constrain molecular modeling (2007) (0)
Reuse with PROTÉGÉ -II: Adapting Problem-Solving Methods with Mapping Relations (1995) (0)
Automated Diagnosis of Data-Model Conflicts (2016) (0)
Association between spironolactone use and COVID-19 outcomes in population-scale claims data: a retrospective cohort study (2023) (0)
Data-driven human transcriptomic modules determined by independent component analysis (2018) (0)
ATOM3D: Residue Identity (RES) Dataset (2021) (0)
Detecting Contradictory COVID-19 Drug Efficacy Claims from Biomedical Literature (2022) (0)
Extracting chemical reactions from text using Snorkel (2020) (0)
Genetic association studies using disease liabilities from deep neural networks (2023) (0)
Biocomputing 2021: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, January 3-7, 2021 (2020) (0)
Plenary & keynote speakers (2016) (0)
Probabilistic constraint network representation of biological structure (1994) (0)
Characterizing the microenvironment surrounding protein sites data (1994) (0)
Proceeding of the 3rd International Workshop on Data and Text Mining in Bioinformatics, DTMBIO 2009, Hong Kong, China, November 6, 2009 (2009) (0)
FRONT MATTER (2019) (0)
ATOM3D: Ligand Efficacy Prediction (LEP) Dataset (2021) (0)
Comprehensive Assessment of Smoking and Sex Related Effects in Publicly Available Gene Expression Data (2021) (0)
Faculty of 1000 evaluation for Toward a complete in silico, multi-layered embryonic stem cell regulatory network. (2012) (0)
Ontological Issues in Pharmacogenomics (2007) (0)
CL-01 Translation of Clinical Proteomics : Opportunities and Challenges (2013) (0)
Biocomputing 2004, Proceedings of the Pacific Symposium, Hawaii, USA, 6-10 January 2004 (2004) (0)

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