Nicholas P. Tatonetti

215 Campus Drive West, MSOB x215, Stanford, CA 94305
480 467 7456
nick.tatonetti@stanford.edu

Education

2012
(Expected) Stanford University
Ph.D. Biomedical Informatics

2011
Stanford University
M.S. Biomedical Informatics

2008 Arizona State University
B.S. Molecular Biosciences/Biotechnology
B.S. Computational Mathematical Sciences
summa cum laude

Publications

Karczewski, KJ, Tirrell RP, Cordero P, Tatonetti NP, Dudley JT, Salari K, Snyder M, Altman RB, Kim SK. Interpretome: A freely available, modular, and secure personal genome interpretation engine. Pac Symp Biocomput 17:339-350(2012)

Karczewski, K.J. Tatonetti NP, Landt SG, Yang X, Slifer T, Altman RB, Snyder M. Cooperative transcription factor associations discovered using regulatory variation. Proc Natl Acad Sci USA 108, 13353–13358 (2011).

Tatonetti, N.P., Fernald, G.H. & Altman, R.B. A novel signal detection algorithm for identifying hidden drug-drug interactions in adverse event reports. J Am Med Inform Assoc (2011) DOI:10.1136/amiajnl-2011-000214

Tatonetti NP, Denny JC, Murphy SN, Fernald GH, Krishnan G, Castro V, P Yue, PS Tsao, Kohane I, Roden DM, and Altman RB. Detecting Drug Interactions From Adverse-Event Reports: Interaction Between Paroxetine and Pravastatin Increases Blood Glucose Levels Clinical Pharmacology & Therapeutics 2011 DOI:10.1038/clpt.2011.83

Tatonetti NP*, Dudley JT*, Sagreiya H, Butte AJ, Altman RB. An integrative method for scoring candidate genes from association studies: application to warfarin dosing. BMC Bioinformatics 2010 11(Suppl 9):S9. PMID:21044367

Garten Y*, Tatonetti NP*, Altman RB. Improving the prediction of pharmacogenes using text-derived drug-gene relationships. Pac Symp Biocomput (2010) pp. 305-14. PMID:19908383

Tatonetti NP, Liu T, Altman RB. Predicting drug side-effects by chemical systems biology. Genome Biol (2009) vol. 10 (9) pp. 238, PMID:19723347

* Denotes equal contribution.

Invited Talks and Panels

Detecting hidden drug-drug interactions in Adverse Event Reports
Journal of the American Medical Informatics Association Editor's Choice Journal Club. November 2011.

Hypothesis generation in large-scale Observational Data
IBM Healthcare Lecture Series. November 2011.

Observational Analysis in a PetaByte World
SFSU Center for Computing for Life Sciences Panel on Data Mining and Predictive Analysis: Research Applications. October 2011.

Data derived drug effects and interactions.
Stanford University Department of Epidemiology Lecture Series. October 2011.

Popular Press

"Data-mining uncovers hyperglycemic drug-drug interaction between paroxetine and pravastatin," DrugTopics, August 2011 link

"Data Mining Approach Shows Promise in Detecting Unexpected Drug Interactions," Journal of the American Medical Association, July 2011 link

"Common drug combo increases diabetes risk," NewScientist, May 2011 link

"Combo of Paxil, Pravachol May Raise Blood Sugar," US News, May 25, 2011 link

"How A MacBook Pro Found Unexpected Drug Side Effects," NPR Shots Health Blog, May 25, 2011 link

Funding Sources

Novel Statistical Methods for Observational Clinical Studies Innovation awards in population medicine research pilot grant. $25k. PI: Altman

Conference Presentations

Tatonetti NP, Haskin GH, Altman RB. Discovering hidden drug-drug interactions from Adverse Event Reports. American Medical Informatics Association Summit on Translation Bioinformatics 2011.

Tatonetti NP, Haskin GH, Altman RB. Detecting drug-drug interactions in spontaneous reporting systems. Biomedical Computation at Stanford 2010.

Tatonetti NP*, Dudley JT*, Altman RB. A Novel Method for Scoring Candidate Genes in Association Studies: Application to Warfarin Response. American Medical Informatics Association Summit on Translation Bioinformatics 2010.

Tatonetti NP, Crook S, Vermaas W. MetabolODE: Optimization software for determining kinetic rate coefficients for biochemical pathways of metabolic isotopomers. Frontiers in Applied and Computational Mathematics 2007.

Conference Posters

Tatonetti NP, Fernald GH, Altman RB. Usings Google's MapReduce Framework for Pharmacogenomics Discovery. Pac Symp Biocomput (2010).

Tatonetti NP, Dudley J, Altman RB. Defining pharmacogene sets that predict abnormal drug response to warfarin. Biomedical Computation at Stanford 2009.

Tatonetti NP, Crook S, Vermaas W. Parameter optimization in underdetermined biochemical networks. MetabolODE Optimization Software: How to solve an impossible problem. Beckam Scholars Symposium 2008.

Tatonetti NP, Crook S, Vermaas W. Optimization of in-vitro kinetic rate coefficients in biochemical reaction pathways. School of Life Sciences Research Symposium 2007.

Awards and Honors

March 2011 Top Podium Presentation Award - AMIA Summit on Translational Bioinformatics

November 2010 Best Presentation (Runner Up) - Biomedical Computation at Stanford

March 2010 Outstanding Paper Award - AMIA Summit on Translational Bioinformatics

September 2010 Department of Energy Graduate Fellowship (3 years)

September 2008 National Library of Medicine Training Grant Recipient

November 2007 Phi Beta Kappa Lifetime Member

May 2007 - October 2008 Beckman Scholar Award

April 2007 Goldwater Scholar Honorable Mention

August 2006 - May 2007 ASU SOLUR Researcher Award

May 2006 Molecular Biosciences/Biotechnology Outstanding Student

Teaching Experience

March 2011 - Teaching Assistant for Course Design, Methods in Healthcare Informatics (BIOMEDIN215), Stanford University

March 2011 - June 2011 Teaching Assistant, Genomics and Personalized Medicine (GENE210), Stanford University

February 2011 Guest Lecturer, Statistical Genetics (GENE244), Stanford University

March 2010 - June 2010 Teaching Assistant, Representations and Algorithms for Computational Molecular Biology (BIOMEDIN214), Stanford University

September 2009 - December 2009 Teaching Assistant, Modeling biomedical systems: ontology, terminology, problem solving (BIOMEDIN210), Stanford University

Related and Professional Experience

March 2009 - Present Stimulomics, Inc., Portola Valley, CA
Chief Executive Officer

February 2009 - April 2010 Mophilia, Inc., Mountain View, CA
Chief Science Officer

August 2006 - August 2008 The CHERUB Foundation
Co-Founder (volunteer)

May 2006 - October 2007 The Triple Helix, Inc.
Chief Technical Officer (volunteer)

January 2006 - December 2006 The Triple Helix at ASU
Vice President/Co-Founder (volunteer)

January 2003 - August 2008 Tatonetti Web_Construction, Tempe, AZ
Founder/Owner

Research Focus

My work focuses on developing rigorous statistical and computational models for addressing these primary shortcomings of observational data analysis in the context of disease risk and drug response.

In my thesis work I developed novel statistical and computational algorithms to analyze large scale clinical databases for drug-drug interaction discovery. I uncovered an unexpected interaction between paroxetine and pravastatin using these methods and validated the interaction in a retrospective analysis of three independent hospital record systems. Finally, I developed tools for uncovering the molecular etiology of adverse events and applied them to mined drug-drug interactions.