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profileChirag Patel, Ph.D.

TitleAssistant Professor of Biomedical Informatics
InstitutionHarvard Medical School
DepartmentBiomedical Informatics
AddressHarvard Medical School
Countway Lib CBMI
10 Shattuck St
Boston MA 02115
Phone617/432-1195
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Available: 08/17/17, Expires: 08/13/18

Clinical diagnostic laboratory tests for the basis of a majority of medical decisions, yet are not ready for the new era in precision medicine. Specifically, health care administrators use reference intervals -- the range of a diagnostic that deems an individual "healthy" or sick -- that are "one size fits all" and based on a few people in the US population. In this project, we will use data science and bioinformatics to mine for optimal reference ranges for population subgroups, such as race/ancestry, sex, and age. The project will entail building analyses to compute risk for health outcomes based on subgroup-specifics reference ranges. The student will get hands-on experience in bioinformatics, clinical diagnostics and phenomics, genomics, data mining and statistics.


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The research activities and funding listed below are automatically derived from NIH ExPORTER and other sources, which might result in incorrect or missing items. Faculty can login to make corrections and additions.
T32DK110919     (FLOREZ, JOSE CARLOS)Sep 1, 2017 - Aug 31, 2022
NIH/NIDDK
Harvard Training Program in Bioinformatics Applied to Diabetes, Obesity and Metabolism.
Role: Co-Principal Investigator

R01AI127250     (BENDAVID, ERAN)Apr 1, 2017 - Mar 31, 2021
NIH/NIAID
Big Data Analysis of HIV Risk and Epidemiology in Sub-Saharan Africa
Role: Co-Principal Investigator

1636870     (PATEL, CHIRAG)Jan 1, 2017 - Dec 31, 2019
NSF
Integration of Environmental Factors and Causal Reasoning Approaches for Large-Scale Observational Health Research
Role Description: This project will aim to assemble a first-ever data warehouse containing numerous health/clinical, environmental, behavioral, and economic data streams to ultimately enable causal discovery between these data sources.
Role: Principal Investigator

R00ES023504     (PATEL, CHIRAG JAGDISH)Jan 1, 2016 - Dec 31, 2018
NIH/NIEHS
Data-driven identification of environmental factors in cardiovascular disease
Role: Principal Investigator

R21ES025052     (PATEL, CHIRAG JAGDISH)Jan 1, 2015 - Nov 30, 2017
NIH/NIEHS
Increasing the power of GxE detection by using multi-locus genome-wide predictors
Role: Principal Investigator

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Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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  1. Aschard H, Guillemot V, Vilhjalmsson B, Patel CJ, Skurnik D, Ye CJ, Wolpin B, Kraft P, Zaitlen N. Covariate selection for association screening in multiphenotype genetic studies. Nat Genet. 2017 Oct 16. PMID: 29038595.
    View in: PubMed
  2. Gauderman WJ, Mukherjee B, Aschard H, Hsu L, Lewinger JP, Patel CJ, Witte JS, Amos C, Tai CG, Conti D, Torgerson DG, Lee S, Chatterjee N. Update on the State of the Science for Analytical Methods for Gene-Environment Interactions. Am J Epidemiol. 2017 Oct 01; 186(7):762-770. PMID: 28978192.
    View in: PubMed
  3. McAllister K, Mechanic LE, Amos C, Aschard H, Blair IA, Chatterjee N, Conti D, Gauderman WJ, Hsu L, Hutter CM, Jankowska MM, Kerr J, Kraft P, Montgomery SB, Mukherjee B, Papanicolaou GJ, Patel CJ, Ritchie MD, Ritz BR, Thomas DC, Wei P, Witte JS. Current Challenges and New Opportunities for Gene-Environment Interaction Studies of Complex Diseases. Am J Epidemiol. 2017 Oct 01; 186(7):753-761. PMID: 28978193.
    View in: PubMed
  4. Brown AS, Rasooly D, Patel CJ. Leveraging population-based clinical quantitative phenotyping for drug repositioning. CPT Pharmacometrics Syst Pharmacol. 2017 Sep 22. PMID: 28941007.
    View in: PubMed
  5. Patel CJ, Kerr J, Thomas DC, Mukherjee B, Ritz B, Chatterjee N, Jankowska M, Madan J, Karagas MR, McAllister KA, Mechanic LE, Fallin MD, Ladd-Acosta C, Blair IA, Teitelbaum SL, Amos CI. Opportunities and Challenges for Environmental Exposure Assessment in Population-Based Studies. Cancer Epidemiol Biomarkers Prev. 2017 Sep; 26(9):1370-1380. PMID: 28710076.
    View in: PubMed
  6. Magni P, Bier DM, Pecorelli S, Agostoni C, Astrup A, Brighenti F, Cook R, Folco E, Fontana L, Gibson RA, Guerra R, Guyatt GH, Ioannidis JP, Jackson AS, Klurfeld DM, Makrides M, Mathioudakis B, Monaco A, Patel CJ, Racagni G, Schünemann HJ, Shamir R, Zmora N, Peracino A. Perspective: Improving Nutritional Guidelines for Sustainable Health Policies: Current Status and Perspectives. Adv Nutr. 2017 Jul; 8(4):532-545. PMID: 28710141.
    View in: PubMed
  7. Brown AS, Patel CJ. MeSHDD: Literature-based drug-drug similarity for drug repositioning. J Am Med Inform Assoc. 2017 May 01; 24(3):614-618. PMID: 27678460.
    View in: PubMed
  8. Brown AS, Patel CJ. A standard database for drug repositioning. Sci Data. 2017 03 14; 4:170029. PMID: 28291243.
    View in: PubMed
  9. Buck Louis GM, Smarr MM, Patel CJ. The Exposome Research Paradigm: an Opportunity to Understand the Environmental Basis for Human Health and Disease. Curr Environ Health Rep. 2017 Mar; 4(1):89-98. PMID: 28194614.
    View in: PubMed
  10. Patel CJ, Manrai AK, Corona E, Kohane IS. Systematic correlation of environmental exposure and physiological and self-reported behaviour factors with leukocyte telomere length. Int J Epidemiol. 2017 Feb 01; 46(1):44-56. PMID: 27059547.
    View in: PubMed
  11. Patel CJ. Analytic Complexity and Challenges in Identifying Mixtures of Exposures Associated with Phenotypes in the Exposome Era. Curr Epidemiol Rep. 2017; 4(1):22-30. PMID: 28251040.
    View in: PubMed
  12. Karczewski KJ, Tatonetti NP, Manrai AK, Patel CJ, Titus Brown C, Ioannidis JPA. METHODS TO ENSURE THE REPRODUCIBILITY OF BIOMEDICAL RESEARCH. Pac Symp Biocomput. 2017; 22:117-119. PMID: 27896967.
    View in: PubMed
  13. Manrai AK, Cui Y, Bushel PR, Hall M, Karakitsios S, Mattingly CJ, Ritchie M, Schmitt C, Sarigiannis DA, Thomas DC, Wishart D, Balshaw DM, Patel CJ. Informatics and Data Analytics to Support Exposome-Based Discovery for Public Health. Annu Rev Public Health. 2017 Mar 20; 38:279-294. PMID: 28068484.
    View in: PubMed
  14. Brown AS, Patel CJ. A review of validation strategies for computational drug repositioning. Brief Bioinform. 2016 Nov 22. PMID: 27881429.
    View in: PubMed
  15. Wulaningsih W, Van Hemelrijck M, Tsilidis KK, Tzoulaki I, Patel C, Rohrmann S. Investigating nutrition and lifestyle factors as determinants of abdominal obesity: an environment-wide study. Int J Obes (Lond). 2017 Feb; 41(2):340-347. PMID: 27840415.
    View in: PubMed
  16. Patel CJ, Sundaram R, Buck Louis GM. A data-driven search for semen-related phenotypes in conception delay. Andrology. 2017 Jan; 5(1):95-102. PMID: 27792860.
    View in: PubMed
  17. Patel CJ, Pho N, McDuffie M, Easton-Marks J, Kothari C, Kohane IS, Avillach P. A database of human exposomes and phenomes from the US National Health and Nutrition Examination Survey. Sci Data. 2016 10 25; 3:160096. PMID: 27779619.
    View in: PubMed
  18. Leppert J, Patel C. Perspective: Beyond the genome. Nature. 2016 09 15; 537(7620):S105. PMID: 27626778.
    View in: PubMed
  19. Patel CJ, Ji J, Sundquist J, Ioannidis JP, Sundquist K. Systematic assessment of pharmaceutical prescriptions in association with cancer risk: a method to conduct a population-wide medication-wide longitudinal study. Sci Rep. 2016 Aug 10; 6:31308. PMID: 27507038; PMCID: PMC4979093.
  20. McGinnis DP, Brownstein JS, Patel CJ. Environment-Wide Association Study of Blood Pressure in the National Health and Nutrition Examination Survey (1999-2012). Sci Rep. 2016 Jul 26; 6:30373. PMID: 27457472; PMCID: PMC4960597.
  21. 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. Mendelian randomization study of adiposity-related traits and risk of breast, ovarian, prostate, lung and colorectal cancer. Int J Epidemiol. 2016 Jun; 45(3):896-908. PMID: 27427428.
    View in: PubMed
  22. 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. Comparative analyses of population-scale phenomic data in electronic medical records reveal race-specific disease networks. Bioinformatics. 2016 Jun 15; 32(12):i101-i110. PMID: 27307606; PMCID: PMC4908366.
  23. Patel CJ, Dominici F. Comment: Addressing the Need for Portability in Big Data Model Building and Calibration. J Am Stat Assoc. 2016; 111(513):127-129. PMID: 27867238.
    View in: PubMed
  24. Cote I, Andersen ME, Ankley GT, Barone S, Birnbaum LS, Boekelheide K, Bois FY, Burgoon LD, Chiu WA, Crawford-Brown D, Crofton KM, DeVito M, Devlin RB, Edwards SW, Guyton KZ, Hattis D, Judson RS, Knight D, Krewski D, Lambert J, Maull EA, Mendrick D, Paoli GM, Patel CJ, Perkins EJ, Poje G, Portier CJ, Rusyn I, Schulte PA, Simeonov A, Smith MT, Thayer KA, Thomas RS, Thomas R, Tice RR, Vandenberg JJ, Villeneuve DL, Wesselkamper S, Whelan M, Whittaker C, White R, Xia M, Yauk C, Zeise L, Zhao J, DeWoskin RS. The Next Generation of Risk Assessment Multi-Year Study-Highlights of Findings, Applications to Risk Assessment, and Future Directions. Environ Health Perspect. 2016 Nov; 124(11):1671-1682. PMID: 27091369.
    View in: PubMed
  25. Patel CJ. Analytical Complexity in Detection of Gene Variant-by-Environment Exposure Interactions in High-Throughput Genomic and Exposomic Research. Curr Environ Health Rep. 2016 Mar; 3(1):64-72. PMID: 26809563; PMCID: PMC4789192.
  26. Brown AS, Kong SW, Kohane IS, Patel CJ. ksRepo: a generalized platform for computational drug repositioning. BMC Bioinformatics. 2016 Feb 09; 17:78. PMID: 26860211; PMCID: PMC4746802.
  27. Manrai AK, Wang BL, Patel CJ, Kohane IS. REPRODUCIBLE AND SHAREABLE QUANTIFICATIONS OF PATHOGENICITY. Pac Symp Biocomput. 2016; 21:231-42. PMID: 26776189; PMCID: PMC4720982.
  28. Manrai AK, Patel CJ, Gehlenborg N, Tatonetti NP, Ioannidis JP, Kohane IS. METHODS TO ENHANCE THE REPRODUCIBILITY OF PRECISION MEDICINE. Pac Symp Biocomput. 2016; 21:180-2. PMID: 26776184.
    View in: PubMed
  29. Manrai AK, Patel CJ, Gehlenborg N, Tatonetti NP, Ioannidis JP, Kohane IS. METHODS TO ENHANCE THE REPRODUCIBILITY OF PRECISION MEDICINE. Pac Symp Biocomput. 2016; 21:180-182. PMID: 28004011.
    View in: PubMed
  30. Merritt MA, Tzoulaki I, van den Brandt PA, Schouten LJ, Tsilidis KK, Weiderpass E, Patel CJ, Tjønneland A, Hansen L, Overvad K, His M, Dartois L, Boutron-Ruault MC, Fortner RT, Kaaks R, Aleksandrova K, Boeing H, Trichopoulou A, Lagiou P, Bamia C, Palli D, Krogh V, Tumino R, Ricceri F, Mattiello A, Bueno-de-Mesquita HB, Onland-Moret NC, Peeters PH, Skeie G, Jareid M, Quirós JR, Obón-Santacana M, Sánchez MJ, Chamosa S, Huerta JM, Barricarte A, Dias JA, Sonestedt E, Idahl A, Lundin E, Wareham NJ, Khaw KT, Travis RC, Ferrari P, Riboli E, Gunter MJ. Nutrient-wide association study of 57 foods/nutrients and epithelial ovarian cancer in the European Prospective Investigation into Cancer and Nutrition study and the Netherlands Cohort Study. Am J Clin Nutr. 2016 Jan; 103(1):161-7. PMID: 26607939.
    View in: PubMed
  31. Serghiou S, Patel CJ, Tan YY, Koay P, Ioannidis JP. Field-wide meta-analyses of observational associations can map selective availability of risk factors and the impact of model specifications. J Clin Epidemiol. 2016 Mar; 71:58-67. PMID: 26415577.
    View in: PubMed
  32. Brown AS, Patel CJ. aRrayLasso: a network-based approach to microarray interconversion. Bioinformatics. 2015 Dec 01; 31(23):3859-61. PMID: 26283699; PMCID: PMC4653393.
  33. Patel CJ, Burford B, Ioannidis JP. Assessment of vibration of effects due to model specification can demonstrate the instability of observational associations. J Clin Epidemiol. 2015 Sep; 68(9):1046-58. PMID: 26279400; PMCID: PMC4555355.
  34. Merritt MA, Tzoulaki I, Tworoger SS, De Vivo I, Hankinson SE, Fernandes J, Tsilidis KK, Weiderpass E, Tjønneland A, Petersen KE, Dahm CC, Overvad K, Dossus L, Boutron-Ruault MC, Fagherazzi G, Fortner RT, Kaaks R, Aleksandrova K, Boeing H, Trichopoulou A, Bamia C, Trichopoulos D, Palli D, Grioni S, Tumino R, Sacerdote C, Mattiello A, Bueno-de-Mesquita HB, Onland-Moret NC, Peeters PH, Gram IT, Skeie G, Quirós JR, Duell EJ, Sánchez MJ, Salmerón D, Barricarte A, Chamosa S, Ericson U, Sonestedt E, Nilsson LM, Idahl A, Khaw KT, Wareham N, Travis RC, Rinaldi S, Romieu I, Patel CJ, Riboli E, Gunter MJ. Investigation of dietary factors and endometrial cancer risk using a nutrient-wide association study approach in the EPIC and Nurses' Health Study (NHS) and NHSII. Cancer Epidemiol Biomarkers Prev. 2015 Feb; 24(2):466-71. PMID: 25662427; PMCID: PMC4324546.
  35. Patel CJ, Ioannidis JP, Cullen MR, Rehkopf DH. Systematic assessment of the correlations of household income with infectious, biochemical, physiological, and environmental factors in the United States, 1999-2006. Am J Epidemiol. 2015 Feb 01; 181(3):171-9. PMID: 25589242; PMCID: PMC4312426 [Available on 02/01/16].
  36. Patel CJ, Manrai AK. Development of exposome correlation globes to map out environment-wide associations. Pac Symp Biocomput. 2015; 231-42. PMID: 25592584; PMCID: PMC4299925.
  37. Patel CJ, Ioannidis JP. Placing epidemiological results in the context of multiplicity and typical correlations of exposures. J Epidemiol Community Health. 2014 Nov; 68(11):1096-100. PMID: 24923805; PMCID: PMC4545966.
  38. Patel CJ, Ioannidis JP. Studying the elusive environment in large scale. JAMA. 2014 Jun 04; 311(21):2173-4. PMID: 24893084; PMCID: PMC4110965.
  39. Li L, Ruau DJ, Patel CJ, Weber SC, Chen R, Tatonetti NP, Dudley JT, Butte AJ. Disease risk factors identified through shared genetic architecture and electronic medical records. Sci Transl Med. 2014 Apr 30; 6(234):234ra57. PMID: 24786325; PMCID: PMC4323098.
  40. Goodman M, LaKind JS, Fagliano JA, Lash TL, Wiemels JL, Winn DM, Patel C, Van Eenwyk J, Kohler BA, Schisterman EF, Albert P, Mattison DR. Cancer cluster investigations: review of the past and proposals for the future. Int J Environ Res Public Health. 2014 Jan 28; 11(2):1479-99. PMID: 24477211; PMCID: PMC3945549.
  41. 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. Investigation of maternal environmental exposures in association with self-reported preterm birth. Reprod Toxicol. 2014 Jun; 45:1-7. PMID: 24373932; PMCID: PMC4316205.
  42. Patel CJ, Rehkopf DH, Leppert JT, Bortz WM, Cullen MR, Chertow GM, Ioannidis JP. Systematic evaluation of environmental and behavioural factors associated with all-cause mortality in the United States national health and nutrition examination survey. Int J Epidemiol. 2013 Dec; 42(6):1795-810. PMID: 24345851; PMCID: PMC3887569.
  43. Lankester J, Patel C, Cullen MR, Ley C, Parsonnet J. Urinary triclosan is associated with elevated body mass index in NHANES. PLoS One. 2013; 8(11):e80057. PMID: 24278238; PMCID: PMC3836985.
  44. Weinberg AE, Eisenberg M, Patel CJ, Chertow GM, Leppert JT. Diabetes severity, metabolic syndrome, and the risk of erectile dysfunction. J Sex Med. 2013 Dec; 10(12):3102-9. PMID: 24010555; PMCID: PMC3891923.
  45. Patel CJ, Sivadas A, Tabassum R, Preeprem T, Zhao J, Arafat D, Chen R, Morgan AA, Martin GS, Brigham KL, Butte AJ, Gibson G. Whole genome sequencing in support of wellness and health maintenance. Genome Med. 2013; 5(6):58. PMID: 23806097; PMCID: PMC3967117.
  46. Kodama K, Tojjar D, Yamada S, Toda K, Patel CJ, Butte AJ. Ethnic differences in the relationship between insulin sensitivity and insulin response: a systematic review and meta-analysis. Diabetes Care. 2013 Jun; 36(6):1789-96. PMID: 23704681; PMCID: PMC3661854.
  47. Corona E, Chen R, Sikora M, Morgan AA, Patel CJ, Ramesh A, Bustamante CD, Butte AJ. Analysis of the genetic basis of disease in the context of worldwide human relationships and migration. PLoS Genet. 2013 May; 9(5):e1003447. PMID: 23717210; PMCID: PMC3662561.
  48. Patel CJ, Chen R, Kodama K, Ioannidis JP, Butte AJ. Systematic identification of interaction effects between validated genome- and environment-wide associations on Type 2 Diabetes Mellitus. AMIA Jt Summits Transl Sci Proc. 2013; 2013:135. PMID: 24303322.
    View in: PubMed
  49. Weinberg AE, Patel CJ, Chertow GM, Leppert JT. Diabetic severity and risk of kidney stone disease. Eur Urol. 2014 Jan; 65(1):242-7. PMID: 23523538; PMCID: PMC3866968.
  50. Patel CJ, Chen R, Kodama K, Ioannidis JP, Butte AJ. Systematic identification of interaction effects between genome- and environment-wide associations in type 2 diabetes mellitus. Hum Genet. 2013 May; 132(5):495-508. PMID: 23334806; PMCID: PMC3625410.
  51. 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. A nutrient-wide association study on blood pressure. Circulation. 2012 Nov 20; 126(21):2456-64. PMID: 23093587; PMCID: PMC4105584.
  52. Patel CJ, Chen R, Butte AJ. Data-driven integration of epidemiological and toxicological data to select candidate interacting genes and environmental factors in association with disease. Bioinformatics. 2012 Jun 15; 28(12):i121-6. PMID: 22689751; PMCID: PMC3371861.
  53. Patel CJ, Cullen MR, Ioannidis JP, Butte AJ. Systematic evaluation of environmental factors: persistent pollutants and nutrients correlated with serum lipid levels. Int J Epidemiol. 2012 Jun; 41(3):828-43. PMID: 22421054; PMCID: PMC3396318.
  54. Patel CJ, Cullen MR. Genetic variability in molecular responses to chemical exposure. EXS. 2012; 101:437-57. PMID: 22945578.
    View in: PubMed
  55. Patel CJ, Bhattacharya J, Butte AJ. An Environment-Wide Association Study (EWAS) on type 2 diabetes mellitus. PLoS One. 2010 May 20; 5(5):e10746. PMID: 20505766; PMCID: PMC2873978.
  56. Patel CJ, Butte AJ. Predicting environmental chemical factors associated with disease-related gene expression data. BMC Med Genomics. 2010 May 06; 3:17. PMID: 20459635; PMCID: PMC2880288.
  57. Zimmerman NH, Zimmerman N, Patel C, Chen DP, Chen DP. ChMP: A collaborative medical history portal. AMIA Annu Symp Proc. 2008 Nov 06; 859-63. PMID: 18999202; PMCID: PMC2655935.
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