For a comprehensive listing see Google Scholar and Harvard Profiles.

Selected Publications (reverse chronological order)

Aether: Leveraging Linear Programming For Optimal Cloud Computing In Genomics.
December, 2017
Jacob Luber*, Braden T Tierney*, Evan Cofer, Chirag J Patel*, and Aleksander D Kostic*
see also: Aether

Opportunities and challenges for environmental exposure assessment in population-based studies.
Cancer Epidemiology, Biomarkers, and Prevention
September, 2017
Chirag J Patel, Jacqueline Kerr, Duncan C. Thomas, Bhramar Mukherjee, Beate Ritz, Nilanjan Chatterjee, Marta Jankowska, Juliette Madan, Margaret R. Karagas, Kimberly A. McAllister, Leah E. Mechanic, M. Daniele Fallin, Christine Ladd-Acosta, Ian A. Blair, Susan L. Teitelbaum and Christopher I. Amos

Leveraging population-based clinical quantitative phenotyping for drug repositioning.
CPT: Pharmacometrics and Systems Pharmacology
September, 2017
Adam S Brown, Danielle Rasooly, Chirag J Patel

RepoDB: A Standard Database for Drug Repositioning.
Nature Scientific Data
March, 2017
Adam S Brown and Chirag J Patel
see also: RepoDB

Informatics and Data Analytics to Support Exposome-Based Discovery for Public Health.
Annual Review of Public Health
March, 2017
Arjun K Manrai, Yuxia Cui, Pierre R Bushel, Molly Hall, Spyros Karakitsios, Carolyn Mattingly, Marylyn Ritchie, Charles Schmitt, Denis A Sarigiannis, Duncan C Thomas, David Wishart, David M Balshaw, Chirag J Patel

Investigating nutrition and lifestyle factors as determinants of abdominal obesity: An environment-wide study.
International journal of obesity
November, 2016
W Wulaningsih, M Van Hemelrijck, KK Tsilidis, I Tzoulaki, C Patel, S Rohrmann

A review of validation strategies for computational drug repositioning.
Briefings in Bioinformatics
November, 2016
Adam S Brown, Chirag J Patel

A data-driven search for semen-related phenotypes in conception delay.
October, 2016
Chirag J Patel, Sundaram Rajeshwari, Germaine Buck Louis

A database of human exposomes and phenomes from the US National Health and Nutrition Examination Survey.
Scientific Data
October, 2016
Chirag J Patel, Nam Pho, Michael McDuffie, Jeremy Easton-Marks, Cartik Kothari, Isaac S Kohane, Paul Avillach

MeSHDD: Literature-based drug-drug similarity for drug repositioning.
Journal of the American Medical Informatics Association
September, 2016
Adam S Brown, Chirag J Patel

Systematic assessment of pharmaceutical prescriptions in association with cancer risk: a method to conduct a population-wide medication-wide longitudinal study.
Scientific Reports
August, 2016
Patel CJ, Ji J, Sundquist J, Ioannidis JP, Sundquist K

Environment-Wide Association Study of Blood Pressure in the National Health and Nutrition Examination Survey (1999–2012).
Scientific Reports
July, 2016
McGinnis DP, Brownstein JS, Patel CJ

Mendelian randomization study of adiposity-related traits and risk of breast, ovarian, prostate, lung and colorectal cancer.
International Journal of Epidemiology
July, 2016
Gao C, Patel CJ, Michailidou K, Peters U, Gong J, Schildkraut J, Schumacher FR, Zheng W, Boffetta P, Stucker I, Willett W, Gruber S, Easton DF, Hunter DJ, Sellers TA, Haiman C, Henderson BE, Hung RJ, Amos C, Pierce BL, Lindström S, Kraft P

Comparative analyses of population-scale phenomic data in electronic medical records reveal race-specific disease networks.
June, 2016
Glicksberg BS, Li L, Badgeley MA, Shameer K, Kosoy R, Beckmann ND, Pho N, Hakenberg J, Ma M, Ayers KL, Hoffman GE, Dan Li S, Schadt EE, Patel CJ, Chen R, Dudley JT

Systematic correlation of environmental exposure and physiological and self-reported behaviour factors with leukocyte telomere length.
International Journal of Epidemiology
April, 2016
Patel CJ, Manrai AK, Corona E, Kohane IS

Analytical Complexity in Detection of Gene Variant-by-Environment Exposure Interactions in High-Throughput Genomic and Exposomic Research.
Current Environmental Health Reports
March, 2016
Patel CJ

ksRepo: a generalized platform for computational drug repositioning.
BMC Bioinformatics
January, 2016
Brown AS, Kong SW, Kohane IS, Patel CJ
Fork the software here.

Assessment of vibration of effects due to model specification can demonstrate the instability of observational associations.
Clinical Journal of Epidemiology
June, 2015
Patel CJ, Burford B, Ioannidis JPAI
Check out our code and figures here.

Systematic Assessment of the Correlations of Household Income With Infectious, Biochemical, Physiological, and Environmental Factors.
American Journal of Epidemiology
January, 2015
Patel CJ, Cullen MR, Ioanndis JPAI, Rehkopf DH
Featured by the American Journal of Epidemiology as an editor's choice paper!

Development of Exposome Globes to Map Out Environment-Wide Associations.
Pacific Symposium on Biocomputing
January, 2015
Patel CJ, Manrai, AK

Placing epidemiological results in the context of multiplicity and typical correlations of exposures. Journal of Epidemiology and Community Health
June 12, 2014
Patel CJ, Ioannidis JPAI

Studying the elusive environment in large scale.
June 4, 2014
Patel CJ, Ioannidis JPAI

Disease risk factors identified through shared genetic architecture and electronic medical records.
Science Translational Medicine
April 6, 2014
Li L, Ruau DJ, Patel CJ, Weber SC, Chen R, Tatonetti NP, Dudley JT, Butte AJ
Featured on the NIH Directors Blog, Mining the Big Data Mountain (5/6/2014).

Investigation of maternal environmental exposures in association with self-reported preterm birth.
Reproductive Toxicology
June 4, 2014
Patel CJ Yang T, Hu Z, Wen Q, Sung J, El-Sayed YY, Cohen H, Gould J, Stevenson DK, Shaw GM, Ling XB, Butte AJ

Systematic evaluation of environmental and behavioural factors associated with all-cause mortality.
International Journal of Epidemiology
December, 2013
Patel CJ, Rehkopf DH, Leppert JT, Bortz WM, Cullen MR, Chertow GM, Ioannidis JP

Whole genome sequencing in support of wellness and health maintenance.
Genome Medicine
June 27, 2013
Patel CJ, Sivadas A, Tabassum R, Preeprem T, Zhao J, Arafat D, Chen R, Morgan AA, Martin GS, Brigham KL, Butte AJ, Gibson G
Featured in GenomeWeb (6/17/2013) and accompanied by an editorial in Genome Medicine, Genetic parts to a preventive medicine whole by Nicholas J Schork.

Analysis of the genetic basis of disease in the context of worldwide human relationships and migration.
PLoS Genetics
May 27, 2013
Corona E, Chen R, Sikora M, Morgan AA, Patel CJ, Ramesh A, Bustamante CD, Butte AJ

Systematic identification of interaction effects between genome- and environment-wide associations in type 2 diabetes mellitus.
Human Genetics
May 27, 2013
Patel CJ, Chen R, Kodama K, Ioannidis JP, Butte AJ
Featured in Everyday Health (1/2013) and (1/2013)

A nutrient-wide association study on blood pressure.
Nov 20, 2012
Tzoulaki I*, Patel CJ*, Okamura T, Chan Q, Brown IJ, Miura K, Ueshima H, Zhao L, Van Horn L, Daviglus ML, Stamler J, Butte AJ, Ioannidis JP, Elliott P
Featured in an editorial in Circulation by JP Forman and Walter Willett.

Data-driven integration of epidemiological and toxicological data to select candidate interacting genes and environmental factors in association with disease.
June 15, 2012
Patel CJ, Chen R, Butte AJ
Winner of best paper in translational bioinformatics during International Society of Molecular Biology (ISMB) 2012.

Systematic evaluation of environmental factors: persistent pollutants and nutrients correlated with serum lipid levels.
International Journal of Epidemiology
June 15, 2012
Patel CJ, Cullen MR, Ioannidis JP, Butte AJ
Featured in GenomeWeb (3/2012).

An Environment-Wide Association Study (EWAS) on type 2 diabetes mellitus.
May 20, 2010
Patel CJ, Bhattacharya J, Butte AJ
Cited >150 times as of 11/2014.
Featured in MIT Technology Review (5/2010), Scientific American (5/2010), ABC News (5/2010), San Jose Mercury News (5/2010), Nature Biotechnology (1/2011), Nature (2/2011), and Nature (5/2012).

Predicting environmental chemical factors associated with disease-related gene expression data.
BMC Medical Genomics
May 6, 2010
Patel CJ, Butte AJ

ChMP: A collaborative medical history portal.
AMIA Annual Symposium Proceedings
Zimmerman NH*, Patel CJ*, and Chen DP*.