NICHOLAS TATONETTI, Ph.D.
Department of Computational Biomedicine, &Cedars-Sinai Cancer
Cedars-Sinai Medical Center
700 N. San Vicente Blvd., Suite 540
West Hollywood, CA 90069
Nicholas.Tatonetti@csmc.edu
tatonettilab.org
Education
Professional Experience
Cedars-Sinai Medical Center, Los Angeles, CA
Professor of Computational Biomedicine, 2024-Current
Associate Director, Computational Oncology, Cedars-Sinai Cancer, 2023-Current
Vice Chair, Operations, Department of Computational Biomedicine, 2022-Current
Columbia University, New York, NY
Chief Officer for Cancer Data Science, Herbert Irving Comprehensive Cancer Center, 2022
Associate Professor of Biomedical Informatics, 2019-2022
Director, Clinical Informatics, Institute for Genomic Medicine, 2017-2022
Co-Director, Bioinformatics, Department of Biomedical Informatics, 2017-2022
Director, Clinical Informatics, Herbert Irving Comprehensive Cancer Center, 2013-2022
Herbert Irving Assistant Professor of Biomedical Informatics, 2012-2019
Stanford University, Stanford, CA
Department of Energy Office of Science Graduate Fellow in the Biomedical Informatics Training Program, 2008-2012.
Doctoral Advisor: Russ Altman,
Doctoral Committee: Atul Butte, Trevor Hastie, and Phillip Tsao,
Dissertation Title: "Data-driven Detection, Prediction, and Validation of Drug-Drug Interactions."
Professional Society Memberships
American Medical Informatics Association (2011-)
American Society of Human Genetics (2016-)
American Society for Clinical Pharmacology and Therapeutics (2016-)
International Society for Computational Biology (2012-2014)
American Statistical Association (2013-2014)
Peer-Reviewed Journal Publications
2026
Multi-Level Latent Variable Models for Coheritability Analysis in Electronic Health Records Statistics in Medicine, (2026) Vol 45 No 15-17 Pp e70675
Optimized phenotype definitions boost GWAS power PLoS Computational Biology, (2026) Vol 22 No 7 Pp e1014431
Machine learning approach for prediction of immune-related pneumonitis Journal of Clinical Oncology, (2026) Vol 44 No 16_suppl Pp 12153
Toward scalable early cancer detection: evaluating EHR-based predictive models against traditional screening criteria NPJ Precision Oncology, (2026) Vol 10 No 1 Pp 299
Association of Androgen Deprivation Therapy With Cardiovascular and Bone-Related Adverse Events in Patients With and Without Prior History of These Events Journal of Urology, (2026) Vol 215 No 5S
Is ChatGPT Biased? Assessing Racial and Sex Biases in AI-Generated Images of Urologists Journal of Urology, (2026) Vol 215 No 5S
Distinguishing Vaginismus and Vulvodynia: Symptom Profiles and Co-Occurrences, and Differences in Concreteness and Affectivity of Associated Adjectives The Journal of Sexual Medicine, (2026) Vol 23 No Supplement_3
WebGWAS: a web server for instant GWAS on arbitrary phenotypes BioData Mining, (2026) Vol 19 No 1 Pp 39
Performance of an Artificial Intelligence-Powered Smartphone Application in Identifying Gluten-free Foods for Individuals With Celiac Disease The American Journal of Gastroenterology, (2026) Vol 121 No 4 Pp 1044-1047
Accent related errors in clinical speech transcription and a LLM-based remedy NPJ Digital Medicine, (2026) Vol 9 No 1 Pp 297
Assessing racial differences in time to subsequent treatment following androgen deprivation therapy among Veterans with prostate cancer Prostate Cancer and Prostatic Diseases, (2026) Vol 29 No 1 Pp 103-110
A crisis of overconfidence: Why confidence, not accuracy, is the real risk in clinical AI BioData Mining, (2026) Vol 19 No 1 Pp 10
Detecting Transthyretin Cardiac Amyloidosis With Artificial Intelligence: A Nonrandomized Clinical Trial JAMA Cardiology, (2026) Vol 11 No 2 Pp 117-124
Leveraging Large Language Models in Extracting Drug Safety Information from Prescription Drug Labels Drug Safety, (2026) Vol 49 No 2 Pp 177-193
2025
Benchmarking proprietary and open-source language and vision-language models for gastroenterology clinical reasoning NPJ Digital Medicine, (2025) Vol 8 No 1 Pp 797
Vision language models versus machine learning models performance on polyp detection and classification in colonoscopy images Scientific Reports, (2025) Vol 15 No 1 Pp 45484
Pediatric Developmental Safety Assessment: Are We Ready for the Next Thalidomide? Clinical Pharmacology and Therapeutics, (2025)
From prompt engineering to agent engineering: expanding the AI toolbox with autonomous agentic AI collaborators for biomedical discovery BioData Mining, (2025) Vol 18 No 1 Pp 78
Racial Differences in Adverse Events After Androgen Deprivation in Veterans With Prostate Cancer JAMA Network Open, (2025) Vol 8 No 11 Pp e2545705
A decade of immune checkpoint inhibitors in lung cancer: Age-specific risks of immune-related adverse events Journal of Geriatric Oncology, (2025) Vol 16 No 8 Pp 102370
The Association Between Stimulant Medication Use and Mortality Journal of Clinical Psychopharmacology, (2025) Vol 45 No 6 Pp 554-561
Decoding Alzheimer's disease at the cellular level reveals promising combination therapy Cell, (2025) Vol 188 No 20 Pp 5433-5435
Development and Validation of an Electronic Health Record Machine Learning Model for Cumulative Upper Gastrointestinal Cancer Risk Prediction American Journal of Gastroenterology, (2025) Vol 120 No 10S2 Pp S646-S647
Enhancing EHR-based pancreatic cancer prediction with LLM-derived embeddings NPJ Digital Medicine, (2025) Vol 8 No 1 Pp 465
OnSIDES database: Extracting adverse drug events from drug labels using natural language processing models Med, (2025) Vol 6 No 7 Pp 100642
Vibe coding: a new paradigm for biomedical software development BioData Mining, (2025) Vol 18 No 1 Pp 46
Biomedical text normalization through generative modeling Journal of Biomedical Informatics, (2025) Vol 167 Pp 104850
Development and Validation of an Electronic Health Record Machine Learning Model for Cumulative Upper Gastrointestinal Cancer Risk Prediction Gastroenterology, (2025) Vol 169 No 1 Pp S-6
Zero-Shot Vision-Language Models Compete with Trained Machine-Learning Models on Polyp Detection and Classification Gastroenterology, (2025) Vol 169 No 1
Can Vision Language Models See What They Say? Investigating Model Attention in Ulcerative Colitis Severity Scoring and Colorectal Polyp Detection Gastrointestinal Endoscopy, (2025) Vol 101 No 5 Pp S17-S18
Heparin treatment is associated with a delayed diagnosis of Alzheimer's dementia in electronic health records from two large United States health systems Molecular Psychiatry, (2025) Vol 30 No 4 Pp 1461-1465
Biases in Race and Ethnicity Introduced by Filtering Electronic Health Records for "Complete Data": Observational Clinical Data Analysis JMIR Medical Informatics, (2025) Vol 13 Pp e67591
Cell-type specific single-cell signatures reveal nephrotoxic drug effects Computational and Structural Biotechnology Journal, (2025) Vol 27 Pp 5148-5158
Rapid identification and phenotyping of nonalcoholic fatty liver disease patients using a machine-based approach in diverse healthcare systems Clinical and Translational Science, (2025) Vol 18 No 1 Pp e70105
2024
Generalizable and automated classification of TNM stage from pathology reports with external validation Nature Communications, (2024) Vol 15 No 1 Pp 8916
Implementation of a rule-based algorithm to find patients eligible for cancer clinical trials JAMIA Open, (2024) Vol 7 No 4 Pp ooae131
The impact of preferred language on cancer wellbeing screen outcomes JCO Oncology Practice, (2024) Vol 20 No 10_suppl Pp 57
The Impact of Preferred Language on Cancer WellBeing Screen Outcomes and Supportive Care Program Touch Points Cancer Epidemiology, Biomarkers & Prevention, (2024) Vol 33 No 9_Supplement Pp C058
TLab at #SMM4H 2024: Retrieval-Augmented Generation for ADE Extraction and Normalization Transactions of the Association for Computational Linguistics (SMM4H 2024), (2024) Pp 153-157
Evaluating time-to-event survival in cutaneous t-cell lymphoma: A clinical-genetic machine learning analysis Journal of Investigative Dermatology, (2024) Vol 144 No 8 Pp S149
KG-LIME: predicting individualized risk of adverse drug events for multiple sclerosis disease-modifying therapy JAMIA, (2024) Vol 31 No 8 Pp 1693-1703
Advancing LGBTQ+ inclusion in STEM education and AI research Patterns, (2024) Vol 5 No 6 Pp 101010
Disrupting how we recruit to cancer clinical trials Journal of Clinical Oncology, (2024) Vol 42 No 16_suppl Pp 11072
Race and association between ADT and adverse events Journal of Clinical Oncology, (2024) Vol 42 No 16_suppl Pp 5073
TCGA-Reports: A machine-readable pathology report resource for benchmarking text-based AI models Patterns, (2024) Vol 5 No 3 Pp 100933
Inborn Errors of Immunity Contribute to the Burden of Skin Disease and Create Opportunities for Improving the Practice of Dermatology The Journal of Investigative Dermatology, (2024) Vol 144 No 2 Pp 307-315.e1
Estimating the heritability of SARS-CoV-2 susceptibility and COVID-19 severity Nature Communications, (2024) Vol 15 No 1 Pp 367
2023
Using machine learning probabilities to identify effects of COVID-19 Patterns, (2023) Vol 4 No 12 Pp 100889
Machine Learning-Based Survival Analysis Reveals Prognostic Clinical and Genetic Insights for Patients with Cutaneous T-Cell Lymphoma Blood, (2023) Vol 142 No Supplement 1 Pp 1715
Elucidating genetic factors of cutaneous T-cell lymphoma staging and disease severity through machine learning European Journal of Cancer, (2023) Vol 190 Pp 113022
Discovering Venom-Derived Drug Candidates Using Differential Gene Expression Toxins, (2023) Vol 15 No 7
Plasma Metabolomics Predicts Chemotherapy Response in Advanced Pancreatic Cancer Cancers, (2023) Vol 15 No 11
Antiracist AI: A Machine Learning Model Using Electrocardiograms and Echocardiograms Can Detect Transthyretin Cardiac Amyloidosis and Decrease Racial Bias in Diagnostic Testing Journal of the American College of Cardiology, (2023) Vol 81 No 8 Pp 338
Association between neighborhood socioeconomic status, built environment and SARS-CoV-2 infection among cancer patients treated at a Tertiary Cancer Center in New York City Cancer Reports, (2023) Vol 6 No 2 Pp e1714
Structured deep embedding model to generate composite clinical indices from electronic health records for early detection of pancreatic cancer Patterns, (2023) Vol 4 No 1 Pp 100636
Session Introduction: Towards Ethical Biomedical Informatics: Learning from Olelo Noeau, Hawaiian Proverbs Pacific Symposium on Biocomputing, (2023) Vol 28 Pp 461-471
2022
Mural Wnt/β-catenin signaling regulates Lama2 expression to promote neurovascular unit maturation Development, (2022) Vol 149 No 17 Pp dev200610
Alterations in the kallikrein-kinin system predict death after heart transplant Scientific Reports, (2022) Vol 12 No 1
A database of pediatric drug effects to evaluate ontogenic mechanisms from child growth and development Med, (2022) Vol 3 No 8 Pp 579-595.e7
Deep learning on time series laboratory test results from electronic health records for early detection of pancreatic cancer Journal of Biomedical Informatics, (2022) Vol 131 Pp 104095
Deep learning on time series laboratory test results from electronic health records for early detection of pancreatic cancer Journal of Clinical Oncology, (2022) Vol 40 No 16_suppl Pp e16268
Snapshots of nascent RNA reveal cell- and stimulus-specific responses to acute kidney injury JCI Insight, (2022) Vol 7 No 6 Pp e146374
System-wide transcriptome damage and tissue identity loss in COVID-19 patients Cell Reports Medicine, (2022) Vol 3 No 2 Pp 100522
No population left behind: Improving paediatric drug safety using informatics and systems biology British Journal of Clinical Pharmacology, (2022) Vol 88 No 4 Pp 1464-1470
Using Time Series Clustering to Segment and Infer Emergency Department Nursing Shifts from Electronic Health Record Log Files AMIA Annual Symposium Proceedings, (2022) Vol 2022 Pp 805-814
2021
Characterizing shared and distinct symptom clusters in common chronic conditions through natural language processing of nursing notes Research in Nursing & Health, (2021) Vol 44 No 6 Pp 906-919
E-Pedigrees: a large-scale automatic family pedigree prediction application Bioinformatics, (2021) Vol 37 No 21 Pp 3966-3968
Pediatric data from the All of Us research program: demonstration of pediatric obesity over time JAMIA Open, (2021) Vol 4 No 4 Pp ooab112
Plasma kallikrein predicts primary graft dysfunction after heart transplant Journal of Heart and Lung Transplantation, (2021) Vol 40 No 10 Pp 1199-1211
Evaluating risk detection methods to uncover ontogenic-mediated adverse drug effect mechanisms in children BioData Mining, (2021) Vol 14 No 1
Where Have All the Emergencies Gone? The Impact of the COVID-19 Pandemic on Obstetric and Gynecologic Procedures and Consults at a New York City Hospital Journal of Minimally Invasive Gynecology, (2021) Vol 28 No 7 Pp 1411-1419.e1
Fine-scale genetic ancestry as a potential new tool for precision medicine Nature Medicine, (2021) Vol 27 No 7 Pp 1152-1153
Longitudinal profiling of circulating miRNA during cardiac allograft rejection: a proof-of-concept study ESC Heart Failure, (2021) Vol 8 No 3 Pp 1840-1849
Identifying Symptom Information in Clinical Notes Using Natural Language Processing Nursing Research, (2021) Vol 70 No 3 Pp 173-183
Medical records-based chronic kidney disease phenotype for clinical care and "big data" observational and genetic studies NPJ Digital Medicine, (2021) Vol 4 No 1 Pp 70
Shotgun transcriptome, spatial omics, and isothermal profiling of SARS-CoV-2 infection reveals unique host responses, viral diversification, and drug interactions Nature Communications, (2021) Vol 12 No 1 Pp 1660
2020
Comparative analysis, applications, and interpretation of electronic health record-based stroke phenotyping methods BioData Mining, (2020) Vol 13 No 1
Association of Neighborhood Deprivation Index With Success in Cancer Care Crowdfunding JAMA Network Open, (2020) Vol 3 No 12 Pp e2026946
Associations between blood type and COVID-19 infection, intubation, and death Nature Communications, (2020) Vol 11 No 1 Pp 5761
The Impact of the COVID-19 Pandemic on Obstetric and Gynecologic Procedures and Consults at a Metropolitan Hospital in the Epicenter Journal of Minimally Invasive Gynecology, (2020) Vol 27 No 7 Pp S108-S109
Using Machine Learning to Identify Adverse Drug Effects Posing Increased Risk to Women Patterns, (2020) Vol 1 No 7 Pp 100108
Immune complement and coagulation dysfunction in adverse outcomes of SARS-CoV-2 infection Nature Medicine, (2020) Vol 26 No 10 Pp 1609-1615
Prevalence of progressive multifocal leukoencephalopathy (PML) in adults and children with systemic lupus erythematosus Lupus Science & Medicine, (2020) Vol 7 No 1 Pp e000388
Predicting Phenotypic Polymyxin Resistance in Klebsiella pneumoniae through Machine Learning Analysis of Genomic Data mSystems, (2020) Vol 5 No 3 Pp e00656-19
2019
PatientExploreR: an extensible application for dynamic visualization of patient clinical history from electronic health records in the OMOP common data model Bioinformatics, (2019) Vol 35 No 21 Pp 4515-4518
Pathway analysis of genomic pathology tests for prognostic cancer subtyping Journal of Biomedical Informatics, (2019) Vol 98 Pp 103286
Challenges with quality of race and ethnicity data in observational databases JAMIA, (2019) Vol 26 No 8-9 Pp 730-736
Clinical Data: Sources and Types, Regulatory Constraints, Applications Clinical and Translational Science, (2019) Vol 12 No 4 Pp 329-333
Mo1634 – No Increased Risk of Colorectal Adenomas in Spouses of Patients with Colorectal Neoplasia Gastroenterology, (2019) Vol 156 No 6 Pp S-810
ROMOP: a light-weight R package for interfacing with OMOP-formatted electronic health record data JAMIA Open, (2019) Vol 2 No 1 Pp 10-14
Exosome Proteomics and Machine Learning Identify Novel Biomarkers of Primary Graft Dysfunction Journal of Heart and Lung Transplantation, (2019) Vol 38 No 4 Pp S137
Translational medicine in the Age of Big Data Briefings in Bioinformatics, (2019) Vol 20 No 2 Pp 457-462
Low Rates of Screening for Celiac Disease Among Family Members Clinical Gastroenterology and Hepatology, (2019) Vol 17 No 3 Pp 463-468
2018
Pathogen population structure can explain hospital outbreaks ISME Journal, (2018) Vol 12 No 12 Pp 2835-2843
Columbia Open Health Data, clinical concept prevalence and co-occurrence from electronic health records Scientific Data, (2018) Vol 5 Pp 180273
Structural and functional cardiac profile after prolonged duration of mechanical unloading: potential implications for myocardial recovery American Journal of Physiology. Heart and Circulatory Physiology, (2018) Vol 315 No 5 Pp H1463-H1476
Pharmacological risk factors associated with hospital readmission rates in a psychiatric cohort identified using prescriptome data mining BMC Medical Informatics and Decision Making, (2018) Vol 18 No Suppl 3 Pp 79
Science as a Culinary Art: How Data Science and Informatics Will Change Knowledge Discovery for Everyone Annual Review of Biomedical Data Science, (2018) Vol 1 No 1 Pp iv-vi
Tissue-Specific Analysis of Pharmacological Pathways CPT: Pharmacometrics & Systems Pharmacology, (2018) Vol 7 No 7 Pp 453-463
Disease Heritability Inferred from Familial Relationships Reported in Medical Records Cell, (2018) Vol 173 No 7 Pp 1692-1704.e11
Mo1024 - Low Rates of Screening for Celiac Disease Among Family Members; Analysis of Algorithm-Identified Familial Relationships Gastroenterology, (2018) Vol 154 No 6
Serum exosomal protein profiling for the non-invasive detection of cardiac allograft rejection Journal of Heart and Lung Transplantation, (2018) Vol 37 No 3 Pp 409-417
Uncovering exposures responsible for birth season - disease effects: a global study JAMIA, (2018) Vol 25 No 3 Pp 275-288
The Next Generation of Drug Safety Science: Coupling Detection, Corroboration, and Validation to Discover Novel Drug Effects and Drug-Drug Interactions Clinical Pharmacology and Therapeutics, (2018) Vol 103 No 2 Pp 177-179
Low Screening Rates for Diabetes Mellitus Among Family Members of Affected Relatives AMIA Annual Symposium Proceedings, (2018) Vol 2018 Pp 1471-1477
2017
Procedure prediction from symbolic Electronic Health Records via time intervals analytics Journal of Biomedical Informatics, (2017) Vol 75 Pp 70-82
Development of A Machine Learning Algorithm to Classify Drugs Of Unknown Fetal Effect Scientific Reports, (2017) Vol 7 No 1 Pp 12839
Climate Classification is an Important Factor in Assessing Quality-of-Care Across Hospitals Scientific Reports, (2017) Vol 7 No 1 Pp 4948
Unique Transcriptional Programs Identify Subtypes of AKI Journal of the American Society of Nephrology, (2017) Vol 28 No 6 Pp 1729-1740
Prognosis of Clinical Outcomes with Temporal Patterns and Experiences with One Class Feature Selection IEEE/ACM Transactions on Computational Biology and Bioinformatics, (2017) Vol 14 No 3 Pp 555-563
Silencing c-Myc translation as a therapeutic strategy through targeting PI3Kδ and CK1ε in hematological malignancies Blood, (2017) Vol 129 No 1 Pp 88-99
Ten Simple Rules to Enable Multi-site Collaborations through Data Sharing PLoS Computational Biology, (2017) Vol 13 No 1
2016
Silencing c-Myc Translation As a Therapeutic Strategy through Targeting PI3K Delta and CK1 Epsilon in Hematological Malignancies Blood, (2016) Vol 128 No 22 Pp 291
Predicting G protein-coupled receptor downstream signaling by tissue expression Bioinformatics, (2016) Vol 32 No 22 Pp 3435-3443
Coupling Data Mining and Laboratory Experiments to Discover Drug Interactions Causing QT Prolongation Journal of the American College of Cardiology, (2016) Vol 68 No 16 Pp 1756-1764
Investigation of 7-dehydrocholesterol reductase pathway to elucidate off-target prenatal effects of pharmaceuticals: a systematic review Pharmacogenomics Journal, (2016) Vol 16 No 5 Pp 411-429
Replicating Cardiovascular Condition-Birth Month Associations Scientific Reports, (2016) Vol 6 Pp 33166
A novel, rapid method to compare the therapeutic windows of oral anticoagulants using the Hill coefficient Scientific Reports, (2016) Vol 6 Pp 29387
A Computational Drug Repositioning Approach for Targeting Oncogenic Transcription Factors Cell Reports, (2016) Vol 15 No 11 Pp 2348-2356
Improving condition severity classification with an efficient active learning based framework Journal of Biomedical Informatics, (2016) Vol 61 Pp 44-54
A Pharmacovigilance Signaling System Based on FDA Regulatory Action and Post-Marketing Adverse Event Reports Drug Safety, (2016) Vol 39 No 6 Pp 561-575
A curated and standardized adverse drug event resource to accelerate drug safety research Scientific Data, (2016) Vol 3 Pp 160026
An Integrative Data Science Pipeline to Identify Novel Drug Interactions that Prolong the QT Interval Drug Safety, (2016) Vol 39 No 5 Pp 433-441
Systems biology approaches for identifying adverse drug reactions and elucidating their underlying biological mechanisms Wiley Interdisciplinary Reviews: Systems Biology and Medicine, (2016) Vol 8 No 2 Pp 104-122
Mapping the effects of drugs on the immune system Nature Biotechnology, (2016) Vol 34 No 1 Pp 47-54
In Search of 'Birth Month Genes': Using Existing Data Repositories to Locate Genes Underlying Birth Month-Disease Relationships AMIA Joint Summits on Translational Science, (2016) Vol 2016 Pp 189-198
Using a Novel Ontology to Inform the Discovery of Therapeutic Peptides from Animal Venoms AMIA Joint Summits on Translational Science, (2016) Vol 2016 Pp 209-218
2015
Disruption of the mTOR-eIF4F Axis By Selectively Targeting PI3Kdelta and Proteasome Potently Inhibits Cap Dependent Translation of c-Myc in Aggressive Lymphomas Blood, (2015) Vol 126 No 23 Pp 593
A Drug Safety Rating System Based on Postmarketing Costs Associated with Adverse Events and Patient Outcomes Journal of Managed Care & Specialty Pharmacy, (2015) Vol 21 No 12 Pp 1134
VenomKB, a new knowledge base for facilitating the validation of putative venom therapies Scientific Data, (2015) Vol 2
Connectivity Homology Enables Inter-Species Network Models of Synthetic Lethality PLoS Computational Biology, (2015) Vol 11 No 10
Birth month affects lifetime disease risk: a phenome-wide method JAMIA, (2015) Vol 22 No 5 Pp 1042-1053
Improving Detection of Arrhythmia Drug-Drug Interactions in Pharmacovigilance Data through the Implementation of Similarity-Based Modeling PLoS One, (2015) Vol 10 No 6
Toward a complete dataset of drug-drug interaction information from publicly available sources Journal of Biomedical Informatics, (2015) Vol 55 Pp 206-217
Development and validation of a classification approach for extracting severity automatically from electronic health records Journal of Biomedical Semantics, (2015) Vol 6
3D Pharmacophoric Similarity improves Multi Adverse Drug Event Identification in Pharmacovigilance Scientific Reports, (2015) Vol 5
Systems Pharmacology Augments Drug Safety Surveillance Clinical Pharmacology and Therapeutics, (2015) Vol 97 No 2 Pp 151-158
A knowledge-based, automated method for phenotyping in the EHR using only clinical pathology reports AMIA Joint Summits on Translational Science, (2015) Vol 2015 Pp 64-68
Are All Vaccines Created Equal? Using Electronic Health Records to Discover Vaccines Associated With Clinician-Coded Adverse Events AMIA Joint Summits on Translational Science, (2015) Vol 2015 Pp 196-200
An Assessment of Family History Information Captured in an Electronic Health Record AMIA Annual Symposium Proceedings, (2015) Vol 2015 Pp 2035-2042
2014
State of the Art and Development of a Drug-Drug Interaction Large Scale Predictor Based on 3D Pharmacophoric Similarity Current Drug Metabolism, (2014) Vol 15 No 5 Pp 490-501
Stimulated Reporting: The Impact of US Food and Drug Administration-Issued Alerts on the Adverse Event Reporting System (FAERS) Drug Safety, (2014) Vol 37 No 11 Pp 971-980
Insight into the Interactions between Novel Coumarin Derivatives and Human A(3) Adenosine Receptors ChemMedChem, (2014) Vol 9 No 10 Pp 2245-2253
Back Cover: Insight into the Interactions between Novel Coumarin Derivatives and Human A3 Adenosine Receptors ChemMedChem, (2014) Vol 9 No 10 Pp 2392
Similarity-based modeling applied to signal detection in pharmacovigilance CPT: Pharmacometrics & Systems Pharmacology, (2014) Vol 3 Pp e137
Similarity-based modeling in large-scale prediction of drug-drug interactions Nature Protocols, (2014) Vol 9 No 9 Pp 2147-2163
Monoamine Oxidase (MAO) Inhibitory Activity: 3-Phenylcoumarins versus 4-Hydroxy-3-phenylcoumarins ChemMedChem, (2014) Vol 9 No 8 Pp 1672-1676
Bridging Islands of Information to Establish an Integrated Knowledge Base of Drugs and Health Outcomes of Interest Drug Safety, (2014) Vol 37 No 8 Pp 557-567
Insight into the Functional and Structural Properties of 3-Arylcoumarin as an Interesting Scaffold in Monoamine Oxidase B Inhibition ChemMedChem, (2014) Vol 9 No 7 Pp 1488-1500
Pharmacological inhibition of cystine-glutamate exchange induces endoplasmic reticulum stress and ferroptosis eLife, (2014) Vol 3
The Weber Effect and the FDA's Adverse Event Reporting System (FAERS): Analysis of Sixty-Two Drugs Approved from 2006 to 2010 (erratum) Drug Safety, (2014) Vol 37 No 5 Pp 381
Impact of Major Bleeding on Long-Term Mortality in Anemic Versus Nonanemic Patients Undergoing Percutaneous Coronary Intervention Using Bivalirudin American Journal of Cardiology, (2014) Vol 113 No 9 Pp 1481-1486
Disease Risk Factors Identified Through Shared Genetic Architecture and Electronic Medical Records Science Translational Medicine, (2014) Vol 6 No 234
The Weber Effect and the FDA's Adverse Event Reporting System (FAERS): Analysis of Sixty-Two Drugs Approved from 2006 to 2010 Drug Safety, (2014) Vol 37 No 4 Pp 283-294
Synthesis, pharmacological study and docking calculations of new benzo[f] coumarin derivatives as dual inhibitors of enzymatic systems involved in neurodegenerative diseases Future Medicinal Chemistry, (2014) Vol 6 No 4 Pp 371-383
Coherent Functional Modules Improve Transcription Factor Target Identification, Cooperativity Prediction, and Disease Association PLoS Genetics, (2014) Vol 10 No 2
STORMSeq: An Open-Source, User-Friendly Pipeline for Processing Personal Genomics Data in the Cloud PLoS One, (2014) Vol 9 No 1
2013
Connecting the Dots: Applications of Network Medicine in Pharmacology and Disease Clinical Pharmacology and Therapeutics, (2013) Vol 94 No 6 Pp 659-669
Genome Wide Analysis of Drug-Induced Torsades de Pointes: Lack of Common Variants with Large Effect Sizes PLoS One, (2013) Vol 8 No 11
Comparative study of the 3-phenylcoumarin scaffold: Synthesis, X-ray structural analysis and semiempirical calculations of a selected series of compounds Journal of Molecular Structure, (2013) Vol 1050 Pp 185-191
High-Throughput Methods for Combinatorial Drug Discovery Science Translational Medicine, (2013) Vol 5 No 205
Genetic variants associated with warfarin dose in African-American individuals: a genome-wide association study Lancet, (2013) Vol 382 No 9894 Pp 790-796
MAO Inhibitory Activity of 2-Arylbenzofurans versus 3-Arylcoumarins: Synthesis, in vitro Study, and Docking Calculations ChemMedChem, (2013) Vol 8 No 6 Pp 956-966
Pathway analysis of genome-wide data improves warfarin dose prediction BMC Genomics, (2013) Vol 14
Web-scale pharmacovigilance: listening to signals from the crowd JAMIA, (2013) Vol 20 No 3 Pp 404-408
Response to 'Use of an algorithm for identifying hidden drug-drug interactions in adverse event reports' by Gooden et al JAMIA, (2013) Vol 20 No 3 Pp 591
Novel (coumarin-3-yl)carbamates as selective MAO-B inhibitors: Synthesis, in vitro and in vivo assays, theoretical evaluation of ADME properties and docking study European Journal of Medicinal Chemistry, (2013) Vol 63 Pp 151-161
Detection of Drug-Drug Interactions by Modeling Interaction Profile Fingerprints PLoS One, (2013) Vol 8 No 3
2012
Data-Driven Prediction of Drug Effects and Interactions Science Translational Medicine, (2012) Vol 4 No 125
A novel signal detection algorithm for identifying hidden drug-drug interactions in adverse event reports JAMIA, (2012) Vol 19 No 1 Pp 79-85
2011
Detecting Drug Interactions From Adverse-Event Reports: Interaction Between Paroxetine and Pravastatin Increases Blood Glucose Levels (erratum) Clinical Pharmacology and Therapeutics, (2011) Vol 90 No 3 Pp 480
Cooperative transcription factor associations discovered using regulatory variation Proceedings of the National Academy of Sciences, (2011) Vol 108 No 32 Pp 13353-13358
Detecting Drug Interactions From Adverse-Event Reports: Interaction Between Paroxetine and Pravastatin Increases Blood Glucose Levels Clinical Pharmacology and Therapeutics, (2011) Vol 90 No 1 Pp 133-142
2010
An integrative method for scoring candidate genes from association studies: application to warfarin dosing BMC Bioinformatics, (2010) Vol 11
2009
Predicting drug side-effects by chemical systems biology Genome Biology, (2009) Vol 10 No 9
Reviews
Large Language Model Analysis of Reporting Quality of Randomized Clinical Trial Articles: A Systematic Review JAMA Network Open, (2025) Vol 8 No 8 Pp e2529418
Foundation Models for Translational Cancer Biology Annual Review of Biomedical Data Science, (2025) Vol 8 No 1 Pp 51-80
Leveraging Unstructured Data in Electronic Health Records to Detect Adverse Events from Pediatric Drug Use: A Scoping Review Annual Review of Biomedical Data Science, (2025) Vol 8 No 1 Pp 227-250
The Need for Synergy in Foresight Research for Healthcare and Medical Sciences Innovations in Digital Health, Diagnostics, and Biomarkers, (2025) Vol 5 Pp 27-31
Current status of artificial intelligence methods for skin cancer survival analysis: a scoping review Frontiers in Medicine, (2024) Vol 11 Pp 1243659
Predictions, Pivots, and a Pandemic: a Review of 2020's Top Translational Bioinformatics Publications Yearbook of Medical Informatics, (2021) Vol 30 No 1 Pp 219-225
Artificial Intelligence for Drug Toxicity and Safety Trends in Pharmacological Sciences, (2019) Vol 40 No 9 Pp 624-635
Informatics and Computational Methods in Natural Product Drug Discovery: A Review and Perspectives Frontiers in Genetics, (2019) Vol 10 Pp 368
Molecular nephrology: types of acute tubular injury Nature Reviews Nephrology, (2019) Vol 15 No 10 Pp 599-612
Machine learning: novel bioinformatics approaches for combating antimicrobial resistance Current Opinion in Infectious Diseases, (2017) Vol 30 No 6 Pp 511-517
Letters to the Editor
No Increased Risk of Colorectal Adenomas in Spouses of Patients with Colorectal Neoplasia Clinical Gastroenterology and Hepatology, (2020) Vol 18 No 2 Pp 509-510
Attention Deficit-Hyperactivity Disorder and Month of School Enrollment New England Journal of Medicine, (2019) Vol 380 No 7 Pp 692-693
Reply: Combination Therapy With Ceftriaxone and Lansoprazole, Acquired Long QT Syndrome and Torsades de Pointes Risk Journal of the American College of Cardiology, (2017) Vol 69 No 14 Pp 1877-1878
Book Chapters
Evaluating the Reporting Quality of 21,041 Randomized Controlled Trial Articles with Large Language Models: A Large-Scale Transparency Analysis Lecture Notes in Computer Science, (2025) Pp 428-437
Probing Large Language Model Hidden States for Adverse Drug Reaction Knowledge Lecture Notes in Computer Science, (2025) Pp 55-64
An Active Learning Framework for Efficient Condition Severity Classification Lecture Notes in Computer Science, (2015) Pp 13-24
Improving the prediction of pharmacogenes using text-derived drug-gene relationships Pacific Symposium on Biocomputing, (2010) Pp 305-314
Editorials
ChatGPT and large language models in academia: opportunities and challenges BioData Mining, (2023) Vol 16 No 1
Abstracts
Cracking the Code: Using Machine Learning to Predict Immune-Related Pneumonitis in Cancer Patients Treated with Immunotherapy 2026 ASCO Annual Meeting, (2026)
Is ChatGPT Biased? Assessing Racial and Sex Biases in AI-Generated Images of Urologists American Urological Association 2026 Annual Meeting, (2026)
Association of Androgen Deprivation Therapy With Cardiovascular and Bone-Related Adverse Events in Patients With and Without Prior History of These Events American Urological Association 2026 Annual Meeting, (2026)
Spatial Multiplexing Using Imaging Mass Cytometry Implicates Immune-Mediated Islet Dysfunction and Invasion in Pancreatic Ductal Adenocarcinoma Associated Diabetes Gastroenterology, (2026) Pp S-2194
Spatial Multiplexing Using Imaging Mass Cytometry Implicates Immune-Mediated Islet Dysfunction and Invasion in Pancreatic Ductal Adenocarcinoma Associated Diabetes Gastrointestinal Endoscopy, (2026) Pp S-2194
Overview of #SMM4H-HeaRD 2026 – Task 6: Predicting TNM staging from pathology reports SMM4H-HeaRD 2026 Workshop and Shared Tasks, (2026) Pp 332-337
Machine learning to predict immune-related adverse events in cancer patients treated with ICIs Journal of Clinical Oncology, (2025) Vol 43 No 16_suppl Pp e13620
92P A novel R-code approach for efficient irAE identification from medical records of NSCLC patients treated with ICIs ESMO Open, (2024) Vol 9 Pp 102671
SynTwin: A graph-based approach for predicting clinical outcomes using digital twins derived from synthetic patients Pacific Symposium on Biocomputing, (2024) Vol 29 Pp 96-107
Assessing racial differences in time to treatment escalation following androgen deprivation therapy among veterans with prostate cancer Journal of Clinical Oncology, (2023)
Session Introduction: Towards Ethical Biomedical Informatics: Learning from Olelo Noeau, Hawaiian Proverbs Pacific Symposium on Biocomputing 2023, (2022) Pp 461-471
Achieving Trustworthy Biomedical Data Solutions Pacific Symposium on Biocomputing 2021, (2020) Pp 1-13
Precision Medicine: Addressing the Challenges of Sharing, Analysis, and Privacy at Scale Pacific Symposium on Biocomputing 2020, (2019) Pp 547-550
The Next Generation of Drug Safety Science: Coupling Detection, Corroboration, and Validation to Discover Novel Drug Effects and Drug-Drug Interactions United Kingdom's Drug Safety Symposium, (2018)
Predictive Modeling of Hospital Readmission Rates Using Electronic Medical Record-Wide Machine Learning: A Case-Study Using Mount Sinai Heart Failure Cohort Pacific Symposium on Biocomputing 2017, (2017) Pp 276-287
Methods to Ensure the Reproducibility of Biomedical Research Pacific Symposium on Biocomputing 2017, (2017) Pp 117-119
Methods to Enhance the Reproducibility of Precision Medicine Pacific Symposium on Biocomputing 2016, (2016) Pp 180-182
Outcomes Prediction via Time Intervals Related Patterns 2015 IEEE International Conference on Data Mining (ICDM), (2015) Pp 919-924
Interpretome: a freely available, modular, and secure personal genome interpretation engine Pacific Symposium on Biocomputing, (2012) Pp 339-350
* Denotes equal contribution.
First Author Publication Last Author Publication Solo Author Publication
Funding Awarded
Current Grants
Precision Pharmacology and Pharmacovigilance: Leveraging AI to address drug safety knowledge gaps National Institute of General Medical Sciences #R35GM131905. $2,753,784 (PI: Tatonetti). 2019–2030.
Coordinating Center for the Program on the Origins of Gastroesophageal Cancers National Cancer Institute #U24CA272897. $3,140,717 (PI: Tatonetti). 2022–2027.
Precision Pharmacology and Pharmacovigilance: Leveraging AI to address drug safety knowledge gaps in underserved populations National Institute of General Medical Sciences #2R35GM131905-07. $2,663,270 (PI: Tatonetti). 2025–2030.
PRISM: Ethically-guided multimodal AI models for predicting disease pathogenesis in individuals with pathogenic variants National Human Genome Research Institute #UG3HG014379. $3,203,253 (PI: Tatonetti). 2025–2027.
PRISM: Ethically-guided multimodal AI models for predicting disease pathogenesis in individuals with pathogenic variants #GR1002760-S02. $811,456 (PI: Tatonetti; Co-I: Tan, Chugh, Kransdorf, Moore, Yuan). 2025–2027.
KronosRx: Sending Patient Avatars to the Future to Transform Drug Safety Prediction #1AY2AX000122. $5,054,235 (PI: Tatonetti; Co-I: Svendsen, Kumar, Sharma, Cui, Gonzalez Hernandez). 2025–2028.
Enhancing Early Detection of Pancreatic Cancer Using GPT Embedded EHR Models #GG020894-01. $348,219 (PI: Tatonetti). 2025–2028.
Cytokine mediated regulation of immunity and microenvironment in colorectal cancer metastasis #1R01CA287786-01. $3,407,685 (PI: Grivennikov; Co-I: Koltsova, Lewis, Tatonetti). 2024–2028.
Microenvironmental and hepatocyte cell type specific regulation of colorectal cancer metastasis by IL17 National Cancer Institute #1R01CA300696-01A1. $3,544,950 (PI: Grivennikov; Co-I: Knott, Koltsova, Seki, Tatonetti). 2026–2031.
Sex Dependent Differences in Anti-tumor Immunity in Colorectal Cancer Liver Metastasis #DBG-25-1522657-01-MM. $297,000 (PI: Grivennikov; Co-I: Li, Koltsova, Tatonetti). 2026–2028.
AI Methods for Large Scale Epidemiological Studies using Patient Reports of Medication Adherence and Tolerability National Library of Medicine #1R01LM014731-01A1. $3,484,662 (PI: Gonzalez Hernandez; Co-I: Gresham, Almario, Spiegel, Chugh, Tatonetti). 2025–2029.
MAE WEST HBF: The Microvascular Aging Effects — Women's Evaluation of Systemic aging Tenacity in Heart, Brain and Frailty #1U54AG094168-01. $7,613,558 (PI: Bairey-Merz, Li, Sati; Co-I: Tatonetti, et al.). 2025–2030.
Enhancing Quality of Life through Remote Patient Monitoring in Men Diagnosed with Advanced Prostate Cancer #HT9425261E241. $2,099,997 (PI: Gresham; Co-I: Freedland, Posadas, Asher, Calsavara, Tatonetti). 2026–2030.
Past Grants
Data driven drug discovery: Investigating the molecular mechanisms of safety and efficacy #5R35GM131905-06. $549,146 (PI: Tatonetti).
Domain-Knowledge Informed Deep Learning for Early Detection of Pancreatic Cancer National Cancer Institute #R21CA265400. $399,535 (PI: Tatonetti). 2021–2023.
Biomedical Data Translator Technical Feasibility Assessment and Architecture Design National Center for Advancing Translational Sciences #OT3TR002027. $2,740,096 (PI: Tatonetti). 2016–2019.
Drug Effect Discovery Through Data Mining and Integrative Chemical Biology National Institute of General Medical Sciences #R01GM107145. $2,536,125 (PI: Tatonetti). 2014–2020.
Identify Patients Broadly for Trial Participation via Informatics Services $52,892 (PI: Tatonetti).
Metabolone Software for Modeling Metabolic Networks Arnold and Mabel Beckman Foundation #BSP2007ntatonetti1. $19,300 (PI: Tatonetti). 2007–2008.
Professional Service
Board of Scientific Counselors, National Toxicology Program, U.S. Department of Health and Human Services, 2024-2028
Editor-in-Chief, BioData Mining, 2024-Present
External Advisory Board Member, One-U Responsible AI Institute, University of Utah, 2024-Present
Evaluation Panel Member, The LOOP Zurich Biomedical Informatics Platform (BMIP), 2023-Present
External Advisor Board Member, University of Alabama, Birmingham Informatics Institute, 2022
External Advisory Panel, Center for Excellence for Natural Product-Drug Interaction Research, 2020-Present
Member, Editorial Board, Annual Reviews of Biomedical Data Science, 2020-Present
Member, International Scientific Advisor Board, UK Biobank, 2019-Present
Special Member, Editorial Board, Annual Reviews of Biomedical Data Science, 2019
National Institute on Aging (NIA) U19 Review Committee, 2018
Chair, AMIA Summit on Translational Bioinformatics, San Francisco, March 2018
Editorial Board Member, Journal of Biomedical Informatics, 2016-2019
Honorary Editorial Board Member, Drug Safety, 2015-
Vice Chair, AMIA Summit on Translational Bioinformatics, San Francisco, March 2017
Track Chair, AMIA Summit on Translational Bioinformatics, San Francisco, March 2016
Session Chair, Big Data to Knowledge, AMIA Translational Bioinformatics Meeting, San Francisco, March 2015
Session Chair, Big Data to Knowledge, AMIA Translational Bioinformatics Meeting, San Francisco, March 2014
Chair, Pre-conference on Next Generation Pharmacology, ASCPT Annual Meeting, March 2014
Editorial Board Member, Pharmacology Research & Perspectives, 2013-
Scientific Program Committee Member, AMIA Summit on Translational Bioinformatics, 2013, 2014, 2015, 2016
Reviewer: Nature, Science, Cell, NEJM, BMJ, Circulation, Nature Medicine, Science Translational Medicine, Cell Systems, Clinical Pharmacology & Therapeutics, CPT:Pharmacometrics & and Systems Pharmacology, PLOS Genetics, PLOS Comp Bio, PLOS One, Molecular Systems Biology, JAMIA, AMIA Symposium, BMC Bioinformatics, Scientific Reports, Journal of Biomedical Informatics, Drug Safety, Database, Allergy, Pacific Symposium on Biocomputing, Bioinformatics
NIH Peer Reviewer, Special section on Genome-wide Gene by Environment Interactions
Invited Talks and Panels
From Signals to Solutions: AI for Safer Medicines in Underserved Groups, ASPET-GLC 38th Annual Scientific Meeting, Chicago, IL, June 2025
Using informatics and AI to facilitate patient recruitment, Cancer AI Retreat 2025, Cedars-Sinai Medical Center, Los Angeles, CA, June 2025
AI-Driven Discovery of Dangerous Drug-Drug Interactions, OB/GYN Department Grand Rounds, Cedars-Sinai Medical Center, Los Angeles, CA, May 2025
The Application of AI in Enhancing Drug Safety, 3rd International CIRLaM Conference, Naples, Italy, May 2025
Observational Data for Biomedical Discoveries, 2025 Nexus Informatics Conference, BioNexus, Kansas City, MO, April 2025
Year in Review: Translational Bioinformatics and Data Science, AMIA 2025 Summit, Pittsburgh, PA, March 2025
Eminent Speaker, Special Topics on Genomics and Translational Bioinformatics, ICIBM 2024, Houston, TX, October 2024
Large Dataset Analysis to Drive Drug Discovery, and Rare Bone Diseases Pre-Meeting: New Drug Discovery — AI and Large Dataset Tools, 2024 ASBMR Annual Meeting, Toronto, Canada, September 2024
Observational Data Mining for Biomedical Discoveries, University of York, York, UK, July 2024
AI-driven Biomedical Discoveries Using Real-World Data, AIME 2024, Salt Lake City, UT, July 2024
AI Driven Discovery of Dangerous Drug-Drug Interactions, WAGO 2024 Presidential Lecture, Western Association of Gynecologic Oncology, Seattle, WA, June 2024
Protect the Women & Children: Machine Learning Methods to Predict Adverse Drug Events for Understudied Populations, UW AI in Medicine Seminar Series, University of Washington, Virtual, June 2024
AI-Driven Discovery of QT Prolonging Drug-drug Interactions, School of Medicine Seminar Series, University of Utah, May 2024
Leveraging Ontogenic Mechanisms for Enhancing Pediatric Drug Safety, FDA / Office of Clinical Pharmacology, Virtual, March 2024
AMIA Translational Bioinformatics Year-in-Review, AI in Medicine (AIME) Conference, Boston, MA, March 2024
AI Education, Cedars-Sinai Medical Center, Los Angeles, CA, February 2024
Clinical Data Mining for Biological Discoveries, BOGIC Seminar, Cedars-Sinai Medical Center, Los Angeles, CA, February 2024
Keynote Speaker, AMIA Translational Bioinformatics Year-in-Review, Seattle, March 13-16, 2023
Invited Speaker, American Society of Health-System Pharmacists, Las Vegas, December 6-7, 2022
Invited Speaker, American Heart Association, San Diego, September 12-13, 2022
Invited Speaker, Science, Society, and the Legacy of Donald A.B. Lindberg M.D., Washington DC/Virtual, September 1, 2022
Invited Speaker, American Society of Health-System Pharmacists Summer Meeting, June 11-13, 2022
Host, Symposium for Artificial Intelligence in Learning Health System (SAIL), May 23-27, 2022
Invited Speaker, United Kingdom's Drug Safety Symposium, London, UK/Virtual, May 10-11, 2022
Keynote Speaker, AMIA Translational Bioinformatics Year-in-Review, Chicago, March 19-22, 2022
Keynote Speaker, AMIA Translational Bioinformatics Year-in-Review, Virtual, March 23, 2021
Invited Speaker, American Society for Human Genetics, Houston, October 15-19, 2019
Keynote Speaker, Health Research Symposium 2019, Hong Kong, June 12, 2019
Invited Speaker, ISPE Mid-Year Meeting 2019, Rome, Italy, April 8, 2019
Keynote Speaker, Onassis Health Day, Athens, Greece, February 11, 2019
Keynote Speaker, World Preclinical Congress Europe, Lisbon, November 25-28, 2018
Keynote Speaker, WCP2018 18th Congress on Basic and Clinical Pharmacology, Kyoto, July 1-6, 2018
Invited Speaer, Big Data for Pharmacovigilance, Drug Safety Research Unit, London, June 20-21, 2018
Invited Speaker, Gordon Research Conference on Drug Safety, Boston, June 10-15, 2018
Keynote Speaker, Molecular Medicine Tri-Conference, February 13th, 2018
Distinguished Lecturer, School of Pharmacy, University at Buffalo, February 1st, 2018
Invited Speaker, AI in Healthcare Summit, Boston, January 19th, 2018
Keynote Speaker, Translational Bioinformatics Conference 2017, San Diegeo, September 29th, 2017
Keynote Lecturer, Ben Gurion University, September 12th, 2017
Invited Speaker, Journalism in Science Conference, Dortmund, Germany, August 7th, 2017
Invited Speaker, AI in Healthcare Summit 2017, San Francisco, July 26th, 2017
Keynote Speaker, Biocomputation at Stanford, 2017, April 10th, 2017
Invited Speaker, ASCPT Annual Meeting 2017, March 18th, 2017
European Medicines Agency, London, November 13th, 2016
Invited Speaker, Future directions in medical data science, London October 10th, 2016
Plenary Speaker, American Society for Human Genetics Annual Meeting 2016, Vancouver, October 18th, 2016
New York Academy of Sciences, New York, September 16th, 2016
Drug Safety Conference, Chicago, June 20th, 2016
Department of Biomedical Informatics, Harvard University, Boston, April 6th, 2016
Five Points Lecture, New York Genome Center, New York City, February 3rd, 2016
New York City Genome Data, Rockefeller University, New York City, January 13th, 2016
Department of Biostatistics and Medical Informatics, UW Madison, Madison, December 11th, 2015
Albany College of Pharmacy and Health Sciences, Albany, October 30th, 2015
World Drug Safety Conference, Chicaco, October 27th, 2015
NHLBI Lecture Series, Washington, D.C., October 13th, 2015
Basel Life Sciences Week, Switzerland, September 23rd, 2015
Big Data and Clinical Trials Conference, Philadelphia, August 25th, 2015
Center for Cancer Systems Biology Seminar Series, Stanford University, Stanford, June 19th, 2015
John Jones Surgical Socieity Annual Meeting, Columbia University, May 8th, 2015
Drug Safety Conference, Chicago, April 22th, 2015
Lecture at Mount Sinai Icahn School of Medicine, New York City, December 19th, 2014
Kavli Foundation Symposium, Indonesia, June 19th, 2014
American Diabetes Association Annual Meeting, Section on Data Science, June 17, 2014
IBM Watson Research Center, Seminar Series, June 4, 2014
Cornell University Medical Center, Seminar Series, June 11, 2014
Uppsala Monitoring Centre Research Conference 2014, Risk: Whose Risk? What Risk?, May 2014
ASPET Annual Conference, Session on Data Science, April 2014
University of California, San Francisco, Pharmaceutical Sciences and Pharmacogenomics Seminar Series, February 10, 2014
Joint Statistical Meetings, Montreal, Canada, August 2013.
Food and Drug Administration meeting on Social Medial Data, Washington, DC, September 2013.
Session Keynote, International Conference on Machine Learning, Role of Machine Learning in Transforming Healthcare Workshop, Atlanta, GA, June 2013.
Institute of Medicine workshop on Learning Health Care Systems, Washington, DC, April 2013.
Center for Computational Biology and Bioinformatics, IUPUI, Indianapolis, IN, March 2013.
Annual Meeting of the Association of Clinical Pharmacology and Therapeutics, Indianapolis, IN, March 2013.
Living Well Through Data, New York, NY, October 2012.
3rd Annual Pacific Coast Statisticians and Pharmacometricians Innovation Conference, June 2012.
Journal of the American Medical Informatics Association Editor's Choice Journal Club. November 2011.
IBM Healthcare Lecture Series. November 2011.
SFSU Center for Computing for Life Sciences Panel on Data Mining and Predictive Analysis: Research Applications. October 2011.
Popular and Scientific Press
New York Times Magazine, October 2014, Can Big Data Tell Us What Clinical Trials Don’t?, link
Columbia Medicine, June 2014, MiningMedicine Gets Personal, link
New York Times, January 2013, Mining Electronic Health Records for Revealing Health Data, link
Genome Web, December 2012, "Seventh Annual Young Investigators." link
Science Careers, April 2012, "Computational Biologists: The Next Pharma Scientists?" link
Chicago Tribue, October 10, 2016, "Scientists see progress in identifying deadly drug interactions." link
Live Science, October 10, 2016, "Deadly Mixture: Scientists Uncover Harmful Drug Interactions." link
Cardiology Today, October 20, 2016, "Data mining, lab testing approach reveals ceftriaxone-lansoprazole interaction" link
TIME, June 2015, "See What Diseases You're at Risk For Based on Your Birth Month." link
The Washington Post, June 2015, "Scientists have discovered how the month you're born matters for your health." link
CBS News, June 2015, "Could your birth month indicate your risk of disease?" link
Discover, June 2015, "Your Birth Month Influences Your Risk for Diseases." link
and >200 others.
Communications of the ACM, October 2012, "Digging for Drug Facts." link
Nature, March 2012, "Drug data reveal sneaky side effects." link
Gizmodo, March 2012, "Drugs Cause About Five Times More Side Effects Than We Realized." link
GenomeWeb, March 2012, "Good Apart, Bad Together." link
ABC News SLC, March 2012, "Drugs may cause five times more side effects than previously believed." link
DrugTopics, August 2011, "Data-mining uncovers hyperglycemic drug-drug interaction between paroxetine and pravastatin." link
Journal of the American Medical Association, July 2011, "Data Mining Approach Shows Promise in Detecting Unexpected Drug Interactions." link
NewScientist, May 2011, "Common drug combo increases diabetes risk." link
US News, May 25, 2011, "Combo of Paxil, Pravachol May Raise Blood Sugar." link
NPR Shots Health Blog, May 25, 2011, "How A MacBook Pro Found Unexpected Drug Side Effects." link
Selected Awards and Honors
Eminent Scholar Award, International Association for Intelligent Biology and Medicine (IAIBM), 2024
Mentor for the NIH and NSF 2018 Data Science Innovation Lab, 2018
New Investigator Award, American Medical Informatics Association (AMIA), November 2016
Irving Scholars Award, Irving Institute for Clinical and Translational Research ($180,000), July 2015
Kavli Foundational Fellow, May 2014
PhRMA Foundation Early Career Award ($100,000), January 2014
Featured by Genome Web in the Seventh Annual Young Investigator Profiles, December 2012
Highlighted Research in the IMIA Yearbook of Medical Informatics, 2012
Top Podium Presentation Award - AMIA Summit on Translational Bioinformatics, March 2011
Best Presentation (Runner Up) - Biomedical Computation at Stanford, November 2010
Outstanding Paper Award - AMIA Summit on Translational Bioinformatics, March 2010
Department of Energy Graduate Fellowship ($150,000), September 2010
National Library of Medicine Training Grant Recipient, September 2008
Phi Beta Kappa Lifetime Member, November 2007
Beckman Scholar Award ($17,600), May 2007 - October 2008
Goldwater Scholar Honorable Mention, April 2007
ASU SOLUR Researcher Award, August 2006 - May 2007
1997 Pinto Horse Association of America National Champion, All Around-Year End Youth High Point Award
1997 Pinto Horse Association of America National Youth Reining Horse Champion
Mentoring
Current
Nadine Friedrich, MD — Postdoctoral Fellow
Trini Nguyen, PhD — Postdoctoral Scientist
Jamil Samaan, MD — Gastroenterology Clinical Fellow (now Assistant Professor, Cedars-Sinai)
Jose Acitores Cortina — Senior Research Data Scientist, Cedars-Sinai & PhD Student, Amsterdam UMC / Vrije Universiteit
Jacob Berkowitz — PhD Student
Jake Patock — PhD Student
Lizbeth Sanchez — PhD Student
Katie LaRow Brown, MA — PhD Candidate, Columbia University, 2020-Present
Former
Robert Moskovitch, PhD — Postdoctoral, 2013-2016
Tal Lorberbaum, PhD — PhD Thesis, 2013-2017
Mary Boland, PhD — PhD Thesis, 2013-2017
Alexandra (Ola) Jacunski, PhD — PhD Thesis, 2013-2017
Jeremy Chang, PhD — Postdoctoral, 2014-2015
Fernanda Polubriaginof, MD PhD — PhD Thesis, 2014-2018
Kayla Quinnies, PhD — Postdoctoral, 2015-2018
Rami Vanguri, PhD — Postdoctoral, 2015-2018
Alexandre Yahi, PhD — PhD Thesis, 2015-2019
Joe Romano, PhD — PhD Thesis, 2015-2019
Phyllis M. Thangaraj, MD, PhD — PhD Thesis, 2016-2020
Nicholas Giangreco, PhD — PhD Thesis, 2017-2021
Anna Basile, PhD — Postdoctoral, 2018-2019
Jenna Kefeli — PhD Thesis, 2018-2023
Vijendra Ramlall, PhD — PhD Thesis, 2018-2022
Jiheum Park, PhD — Postdoctoral, 2019-2022 (now Assistant Professor, Weill Cornell Medicine)
Yutaro Tanaka — Research, 2020-2023
Michael Zietz — PhD Thesis, 2020-2024
Undina Gisladottir — PhD Thesis, 2020-2025
Pietro Belloni, PhD — Research, 2021-2022
Jason Patterson — Master's Thesis, 2021-2023
Theresa Koleck, PhD — Postdoctoral, 2019-2022 (now Assistant Professor, University of Pittsburgh)
Ali Soroush, MD — Research, 2023-2025 (now at Mount Sinai)
Teaching Experience
Instructor, Translational Bioinformatics (BINF G4006), Columbia University, Fall 2015, Fall 2016, Fall 2017, Fall 2019
Instructor, Introduction to Biomedical Informatics, Columbia University, 2014-2019
Director, Biomedical Informatics Research Seminar, Columbia University, 2013-2014
Guest Lecturer, Medical Genetics, Columbia University, December 2013
Guest Lecturer, Introduction to Biomedical Informatics, Columbia University, December 2012, November 2013
Teaching Assistant for Course Design, Methods in Healthcare Informatics (BIOMEDIN215), Stanford University, March 2011
Teaching Assistant, Genomics and Personalized Medicine (GENE210), Stanford University, March 2011 - June 2011
Guest Lecturer, Statistical Genetics (GENE244), Stanford University, February 2011
Teaching Assistant, Representations and Algorithms for Computational Molecular Biology (BIOMEDIN214), Stanford University, March 2010 - June 2010
Teaching Assistant, Modeling biomedical systems: ontology, terminology, problem solving (BIOMEDIN210), Stanford University, September 2009 - December 2009
Related and Professional Experience
Co-Founder, Last Mile Health, 2026-Present
Co-Founder, Woven Sciences, LLC, 2020-2022
Scientific Advisory Board Member, Gilead/Goldfinch Collaboration, 2020-Present
Scientific Advisor, Advera Health, 2012-Present
Scientific Advisor, You Gene, Inc., New York City, NY 2013-2019
Chief Executive Officer, Stimulomics, Inc., Portola Valley, CA 2009-2012
Chief Science Officer, Mophilia, Inc., Mountain View, CA 2009-2010
Chief Technical Officier (volunteer), The Triple Helix, Inc., Ithica, NY 2006-2007
Vice President/Co-Founder (volunteer), The Triple Helix at ASU, Tempe, AZ 2006
Founder/Owner, Tatonetti Web_Construction, Tempe, AZ 2003 - 2008