Faculty Appointments
Associate Professor of Biomedical Informatics
Education
Ph.D., Biomedical Informatics, Vanderbilt University, Nashville, TennesseeM.S., Biomedical Informatics, Vanderbilt University, Nashville, Tennessee
Publications
Gamazon ER, Wheeler HE, Shah KP, Mozaffari SV, Aquino-Michaels K, Carroll RJ, Eyler AE, Denny JC, , Nicolae DL, Cox NJ, Im HK. A gene-based association method for mapping traits using reference transcriptome data. Nat. Genet [print-electronic]. 2015 Sep; 47(9): 1091-8. PMID: 26258848, PMCID: PMC4552594, PII: ng.3367, DOI: 10.1038/ng.3367, ISSN: 1546-1718.
Carroll RJ, Eyler AE, Denny JC. Intelligent use and clinical benefits of electronic health records in rheumatoid arthritis. Expert Rev Clin Immunol [print-electronic]. 2015 Mar; 11(3): 329-37. PMID: 25660652, PMCID: PMC4518025, DOI: 10.1586/1744666X.2015.1009895, ISSN: 1744-8409.
Crosslin DR, Carrell DS, Burt A, Kim DS, Underwood JG, Hanna DS, Comstock BA, Baldwin E, de Andrade M, Kullo IJ, Tromp G, Kuivaniemi H, Borthwick KM, McCarty CA, Peissig PL, Doheny KF, Pugh E, Kho A, Pacheco J, Hayes MG, Ritchie MD, Verma SS, Armstrong G, Stallings S, Denny JC, Carroll RJ, Crawford DC, Crane PK, Mukherjee S, Bottinger E, Li R, Keating B, Mirel DB, Carlson CS, Harley JB, Larson EB, Jarvik GP. Genetic variation in the HLA region is associated with susceptibility to herpes zoster. Genes Immun [print-electronic]. 2015 Jan; 16(1): 1-7. PMID: 25297839, PMCID: PMC4308645, PII: gene201451, DOI: 10.1038/gene.2014.51, ISSN: 1476-5470.
Carroll RJ, Bastarache L, Denny JC. R PheWAS: data analysis and plotting tools for phenome-wide association studies in the R environment. Bioinformatics [print-electronic]. 2014 Aug 8/15/2014; 30(16): 2375-6. PMID: 24733291, PMCID: PMC4133579, PII: btu197, DOI: 10.1093/bioinformatics/btu197, ISSN: 1367-4811.
Okada Y, Wu D, Trynka G, Raj T, Terao C, Ikari K, Kochi Y, Ohmura K, Suzuki A, Yoshida S, Graham RR, Manoharan A, Ortmann W, Bhangale T, Denny JC, Carroll RJ, Eyler AE, Greenberg JD, Kremer JM, Pappas DA, Jiang L, Yin J, Ye L, Su DF, Yang J, Xie G, Keystone E, Westra HJ, Esko T, Metspalu A, Zhou X, Gupta N, Mirel D, Stahl EA, Diogo D, Cui J, Liao K, Guo MH, Myouzen K, Kawaguchi T, Coenen MJ, van Riel PL, van de Laar MA, Guchelaar HJ, Huizinga TW, Dieudé P, Mariette X, Bridges SL, Zhernakova A, Toes RE, Tak PP, Miceli-Richard C, Bang SY, Lee HS, Martin J, Gonzalez-Gay MA, Rodriguez-Rodriguez L, Rantapää-Dahlqvist S, Arlestig L, Choi HK, Kamatani Y, Galan P, Lathrop M, , , Eyre S, Bowes J, Barton A, de Vries N, Moreland LW, Criswell LA, Karlson EW, Taniguchi A, Yamada R, Kubo M, Liu JS, Bae SC, Worthington J, Padyukov L, Klareskog L, Gregersen PK, Raychaudhuri S, Stranger BE, De Jager PL, Franke L, Visscher PM, Brown MA, Yamanaka H, Mimori T, Takahashi A, Xu H, Behrens TW, Siminovitch KA, Momohara S, Matsuda F, Yamamoto K, Plenge RM. Genetics of rheumatoid arthritis contributes to biology and drug discovery. Nature [print-electronic]. 2014 Feb 2/20/2014; 506(7488): 376-81. PMID: 24390342, PMCID: PMC3944098, PII: nature12873, DOI: 10.1038/nature12873, ISSN: 1476-4687.
Cronin RM, Field JR, Bradford Y, Shaffer CM, Carroll RJ, Mosley JD, Bastarache L, Edwards TL, Hebbring SJ, Lin S, Hindorff LA, Crane PK, Pendergrass SA, Ritchie MD, Crawford DC, Pathak J, Bielinski SJ, Carrell DS, Crosslin DR, Ledbetter DH, Carey DJ, Tromp G, Williams MS, Larson EB, Jarvik GP, Peissig PL, Brilliant MH, McCarty CA, Chute CG, Kullo IJ, Bottinger E, Chisholm R, Smith ME, Roden DM, Denny JC. Phenome-wide association studies demonstrating pleiotropy of genetic variants within FTO with and without adjustment for body mass index. Front Genet. 2014; 5: 250. PMID: 25177340, PMCID: PMC4134007, DOI: 10.3389/fgene.2014.00250, ISSN: 1664-8021.
Okada Y, Diogo D, Greenberg JD, Mouassess F, Achkar WA, Fulton RS, Denny JC, Gupta N, Mirel D, Gabriel S, Li G, Kremer JM, Pappas DA, Carroll RJ, Eyler AE, Trynka G, Stahl EA, Cui J, Saxena R, Coenen MJ, Guchelaar HJ, Huizinga TW, Dieudé P, Mariette X, Barton A, Canhão H, Fonseca JE, de Vries N, Tak PP, Moreland LW, Bridges SL, Miceli-Richard C, Choi HK, Kamatani Y, Galan P, Lathrop M, Raj T, De Jager PL, Raychaudhuri S, Worthington J, Padyukov L, Klareskog L, Siminovitch KA, Gregersen PK, Mardis ER, Arayssi T, Kazkaz LA, Plenge RM. Integration of sequence data from a Consanguineous family with genetic data from an outbred population identifies PLB1 as a candidate rheumatoid arthritis risk gene. PLoS ONE. 2014; 9(2): e87645. PMID: 24520335, PMCID: PMC3919745, PII: PONE-D-13-39108, DOI: 10.1371/journal.pone.0087645, ISSN: 1932-6203.
Chen Y, Carroll RJ, Hinz ER, Shah A, Eyler AE, Denny JC, Xu H. Applying active learning to high-throughput phenotyping algorithms for electronic health records data. J Am Med Inform Assoc [print-electronic]. 2013 Dec; 20(e2): e253-9. PMID: 23851443, PMCID: PMC3861916, PII: amiajnl-2013-001945, DOI: 10.1136/amiajnl-2013-001945, ISSN: 1527-974X.
Carroll RJ, Thompson WK, Eyler AE, Mandelin AM, Cai T, Zink RM, Pacheco JA, Boomershine CS, Lasko TA, Xu H, Karlson EW, Perez RG, Gainer VS, Murphy SN, Ruderman EM, Pope RM, Plenge RM, Kho AN, Liao KP, Denny JC. Portability of an algorithm to identify rheumatoid arthritis in electronic health records. J Am Med Inform Assoc [print-electronic]. 2012 Jun; 19(e1): e162-9. PMID: 22374935, PMCID: PMC3392871, PII: amiajnl-2011-000583, DOI: 10.1136/amiajnl-2011-000583, ISSN: 1527-974X.
Carroll RJ, Eyler AE, Denny JC. Naïve Electronic Health Record phenotype identification for Rheumatoid arthritis. AMIA Annu Symp Proc [print-electronic]. 2011; 2011: 189-96. PMID: 22195070, PMCID: PMC3243261, ISSN: 1942-597X.
Carroll RJ, Eyler AE, Denny JC. Intelligent use and clinical benefits of electronic health records in rheumatoid arthritis. Expert Rev Clin Immunol [print-electronic]. 2015 Mar; 11(3): 329-37. PMID: 25660652, PMCID: PMC4518025, DOI: 10.1586/1744666X.2015.1009895, ISSN: 1744-8409.
Crosslin DR, Carrell DS, Burt A, Kim DS, Underwood JG, Hanna DS, Comstock BA, Baldwin E, de Andrade M, Kullo IJ, Tromp G, Kuivaniemi H, Borthwick KM, McCarty CA, Peissig PL, Doheny KF, Pugh E, Kho A, Pacheco J, Hayes MG, Ritchie MD, Verma SS, Armstrong G, Stallings S, Denny JC, Carroll RJ, Crawford DC, Crane PK, Mukherjee S, Bottinger E, Li R, Keating B, Mirel DB, Carlson CS, Harley JB, Larson EB, Jarvik GP. Genetic variation in the HLA region is associated with susceptibility to herpes zoster. Genes Immun [print-electronic]. 2015 Jan; 16(1): 1-7. PMID: 25297839, PMCID: PMC4308645, PII: gene201451, DOI: 10.1038/gene.2014.51, ISSN: 1476-5470.
Carroll RJ, Bastarache L, Denny JC. R PheWAS: data analysis and plotting tools for phenome-wide association studies in the R environment. Bioinformatics [print-electronic]. 2014 Aug 8/15/2014; 30(16): 2375-6. PMID: 24733291, PMCID: PMC4133579, PII: btu197, DOI: 10.1093/bioinformatics/btu197, ISSN: 1367-4811.
Okada Y, Wu D, Trynka G, Raj T, Terao C, Ikari K, Kochi Y, Ohmura K, Suzuki A, Yoshida S, Graham RR, Manoharan A, Ortmann W, Bhangale T, Denny JC, Carroll RJ, Eyler AE, Greenberg JD, Kremer JM, Pappas DA, Jiang L, Yin J, Ye L, Su DF, Yang J, Xie G, Keystone E, Westra HJ, Esko T, Metspalu A, Zhou X, Gupta N, Mirel D, Stahl EA, Diogo D, Cui J, Liao K, Guo MH, Myouzen K, Kawaguchi T, Coenen MJ, van Riel PL, van de Laar MA, Guchelaar HJ, Huizinga TW, Dieudé P, Mariette X, Bridges SL, Zhernakova A, Toes RE, Tak PP, Miceli-Richard C, Bang SY, Lee HS, Martin J, Gonzalez-Gay MA, Rodriguez-Rodriguez L, Rantapää-Dahlqvist S, Arlestig L, Choi HK, Kamatani Y, Galan P, Lathrop M, , , Eyre S, Bowes J, Barton A, de Vries N, Moreland LW, Criswell LA, Karlson EW, Taniguchi A, Yamada R, Kubo M, Liu JS, Bae SC, Worthington J, Padyukov L, Klareskog L, Gregersen PK, Raychaudhuri S, Stranger BE, De Jager PL, Franke L, Visscher PM, Brown MA, Yamanaka H, Mimori T, Takahashi A, Xu H, Behrens TW, Siminovitch KA, Momohara S, Matsuda F, Yamamoto K, Plenge RM. Genetics of rheumatoid arthritis contributes to biology and drug discovery. Nature [print-electronic]. 2014 Feb 2/20/2014; 506(7488): 376-81. PMID: 24390342, PMCID: PMC3944098, PII: nature12873, DOI: 10.1038/nature12873, ISSN: 1476-4687.
Cronin RM, Field JR, Bradford Y, Shaffer CM, Carroll RJ, Mosley JD, Bastarache L, Edwards TL, Hebbring SJ, Lin S, Hindorff LA, Crane PK, Pendergrass SA, Ritchie MD, Crawford DC, Pathak J, Bielinski SJ, Carrell DS, Crosslin DR, Ledbetter DH, Carey DJ, Tromp G, Williams MS, Larson EB, Jarvik GP, Peissig PL, Brilliant MH, McCarty CA, Chute CG, Kullo IJ, Bottinger E, Chisholm R, Smith ME, Roden DM, Denny JC. Phenome-wide association studies demonstrating pleiotropy of genetic variants within FTO with and without adjustment for body mass index. Front Genet. 2014; 5: 250. PMID: 25177340, PMCID: PMC4134007, DOI: 10.3389/fgene.2014.00250, ISSN: 1664-8021.
Okada Y, Diogo D, Greenberg JD, Mouassess F, Achkar WA, Fulton RS, Denny JC, Gupta N, Mirel D, Gabriel S, Li G, Kremer JM, Pappas DA, Carroll RJ, Eyler AE, Trynka G, Stahl EA, Cui J, Saxena R, Coenen MJ, Guchelaar HJ, Huizinga TW, Dieudé P, Mariette X, Barton A, Canhão H, Fonseca JE, de Vries N, Tak PP, Moreland LW, Bridges SL, Miceli-Richard C, Choi HK, Kamatani Y, Galan P, Lathrop M, Raj T, De Jager PL, Raychaudhuri S, Worthington J, Padyukov L, Klareskog L, Siminovitch KA, Gregersen PK, Mardis ER, Arayssi T, Kazkaz LA, Plenge RM. Integration of sequence data from a Consanguineous family with genetic data from an outbred population identifies PLB1 as a candidate rheumatoid arthritis risk gene. PLoS ONE. 2014; 9(2): e87645. PMID: 24520335, PMCID: PMC3919745, PII: PONE-D-13-39108, DOI: 10.1371/journal.pone.0087645, ISSN: 1932-6203.
Chen Y, Carroll RJ, Hinz ER, Shah A, Eyler AE, Denny JC, Xu H. Applying active learning to high-throughput phenotyping algorithms for electronic health records data. J Am Med Inform Assoc [print-electronic]. 2013 Dec; 20(e2): e253-9. PMID: 23851443, PMCID: PMC3861916, PII: amiajnl-2013-001945, DOI: 10.1136/amiajnl-2013-001945, ISSN: 1527-974X.
Carroll RJ, Thompson WK, Eyler AE, Mandelin AM, Cai T, Zink RM, Pacheco JA, Boomershine CS, Lasko TA, Xu H, Karlson EW, Perez RG, Gainer VS, Murphy SN, Ruderman EM, Pope RM, Plenge RM, Kho AN, Liao KP, Denny JC. Portability of an algorithm to identify rheumatoid arthritis in electronic health records. J Am Med Inform Assoc [print-electronic]. 2012 Jun; 19(e1): e162-9. PMID: 22374935, PMCID: PMC3392871, PII: amiajnl-2011-000583, DOI: 10.1136/amiajnl-2011-000583, ISSN: 1527-974X.
Carroll RJ, Eyler AE, Denny JC. Naïve Electronic Health Record phenotype identification for Rheumatoid arthritis. AMIA Annu Symp Proc [print-electronic]. 2011; 2011: 189-96. PMID: 22195070, PMCID: PMC3243261, ISSN: 1942-597X.