Carole Ober, Ph.D.

Professor, Chair of the Department of Human Genetics

Office address: CLSC 507C
Telephone number: 773 834 0735

 

Lab Webpage

Research Description

The research goals of my laboratory are to identify genetic variants that influence methylation and gene expression in tissues relevant to complex phenotypes and common diseases, in particular those related to asthma, chronic rhinosinutsitis (CRS), and fertility and parturition. To this end we are using both freshly isolated cells and tissues and cell culture models of gene-environment interactions to dissect the genetic architecture of common diseases. Our studies are conducted in founder populations, the Hutterites of South Dakota and the Amish of northern Indiana, in U.S. and European birth cohorts, and in patient populations from Chicago.

Selected Publications

Innate Immunity and Asthma Risk in Amish and Hutterite Farm Children.
Stein MM, Hrusch CL, Gozdz J, Igartua C, Pivniouk V, Murray SE, Ledford JG, Marques dos Santos M, Anderson RL, Metwali N, Neilson JW, Maier RM, Gilbert JA, Holbreich M, Thorne PS, Martinez FD, von Mutius E, Vercelli D, Ober C, Sperling AI
(2016 Aug) N Engl J Med. 2016 Aug 4;375(5):411-21. doi: 10.1056/NEJMoa1508749. 27518660

Expression Quantitative Trait Locus Mapping Studies in Mid-secretory Phase Endometrial Cells Identifies HLA-F and TAP2 as Fecundability-Associated Genes.
Burrows CK, Kosova G, Herman C, Patterson K, Hartmann KE, Velez Edwards DR, Stephenson MD, Lynch VJ, Ober C
(2016 Jul) PLoS Genet. 2016 Jul 22;12(7):e1005858. doi: 10.1371/journal.pgen.1005858. eCollection 2016 Jul. 27447835 (Full Text)

Genome-Wide Methylation Study Identifies an IL-13-induced Epigenetic Signature in Asthmatic Airways.
Nicodemus-Johnson J, Naughton KA, Sudi J, Hogarth K, Naurekas ET, Nicolae DL, Sperling AI, Solway J, White SR, Ober C
(2016 Feb) Am J Respir Crit Care Med. 2016 Feb 15;193(4):376-85. doi: 10.1164/rccm.201506-1243OC. 26474238 (Full Text)

Host genetic variation influences gene expression response to rhinovirus infection.
Caliskan M, Baker SW, Gilad Y, Ober C
(2015 Apr) PLoS Genet. 2015 Apr 13;11(4):e1005111. doi: 10.1371/journal.pgen.1005111. eCollection 2015 Apr. 25874939 (Full Text)

Evolutionary forward genomics reveals novel insights into the genes and pathways dysregulated in recurrent early pregnancy loss.
Kosova G, Stephenson MD, Lynch VJ, Ober C
(2015 Mar) Hum Reprod. 2015 Mar;30(3):519-29. doi: 10.1093/humrep/deu355. Epub 2015 Jan 12. 25586782 (Full Text)

PRIMAL: Fast and accurate pedigree-based imputation from sequence data in a founder population.
Livne OE, Han L, Alkorta-Aranburu G, Wentworth-Sheilds W, Abney M, Ober C, Nicolae DL
(2015 Mar) PLoS Comput Biol. 2015 Mar 3;11(3):e1004139. doi: 10.1371/journal.pcbi.1004139. eCollection 2015 Mar. 25735005 (Full Text)

Ethnic-specific associations of rare and low-frequency DNA sequence variants with asthma.
Igartua C, Myers RA, Mathias RA, Pino-Yanes M, Eng C, Graves PE, Levin AM, Del-Rio-Navarro BE, Jackson DJ, Livne OE, Rafaels N, Edlund CK, Yang JJ, Huntsman S, Salam MT, Romieu I, Mourad R, Gern JE, Lemanske RF, Wyss A, Hoppin JA, Barnes KC, Burchard EG, Gauderman WJ, Martinez FD, Raby BA, Weiss ST, Williams LK, London SJ, Gilliland FD, Nicolae DL, Ober C
(2015 Jan) Nat Commun. 2015 Jan 16;6:5965. doi: 10.1038/ncomms6965. 25591454 (Full Text)

Genome-wide interaction studies reveal sex-specific asthma risk alleles.
Myers RA, Scott NM, Gauderman WJ, Qiu W, Mathias RA, Romieu I, Levin AM, Pino-Yanes M, Graves PE, Villarreal AB, Beaty TH, Carey VJ, Croteau-Chonka DC, del Rio Navarro B, Edlund C, Hernandez-Cadena L, Navarro-Olivos E, Padhukasahasram B, Salam MT, Torgerson DG, Van den Berg DJ, Vora H, Bleecker ER, Meyers DA, Williams LK, Martinez FD, Burchard EG, Barnes KC, Gilliland FD, Weiss ST, London SJ, Raby BA, Ober C, Nicolae DL
(2014 Oct) Hum Mol Genet. 2014 Oct 1;23(19):5251-9. doi: 10.1093/hmg/ddu222. Epub 2014 May 13. 24824216 (Full Text)

Genome-wide association study of lung function phenotypes in a founder population.
Yao TC, Du G, Han L, Sun Y, Hu D, Yang JJ, Mathias R, Roth LA, Rafaels N, Thompson EE, Loisel DA, Anderson R, Eng C, Arruabarrena Orbegozo M, Young M, Klocksieben JM, Anderson E, Shanovich K, Lester LA, Williams LK, Barnes KC, Burchard EG, Nicolae DL, Abney M, Ober C
(2014 Jan) J Allergy Clin Immunol. 2014 Jan;133(1):248-55.e1-10. doi: 10.1016/j.jaci.2013.06.018. Epub 2013 Aug 6. 23932459 (Full Text)

Maternal asthma and microRNA regulation of soluble HLA-G in the airway.
Nicodemus-Johnson J, Laxman B, Stern RK, Sudi J, Tierney CN, Norwick L, Hogarth DK, McConville JF, Naureckas ET, Sperling AI, Solway J, Krishnan JA, Nicolae DL, White SR, Ober C
(2013 Jun) J Allergy Clin Immunol. 2013 Jun;131(6):1496-503. doi: 10.1016/j.jaci.2013.01.037. Epub 2013 Mar 25. 23534973 (Full Text)

Rhinovirus wheezing illness and genetic risk of childhood-onset asthma.
Caliskan M, Bochkov YA, Kreiner-Moller E, Bonnelykke K, Stein MM, Du G, Bisgaard H, Jackson DJ, Gern JE, Lemanske RF Jr, Nicolae DL, Ober C
(2013 Apr) N Engl J Med. 2013 Apr 11;368(15):1398-407. doi: 10.1056/NEJMoa1211592. Epub 2013 Mar 27. 23534543 (Full Text)

A population-based study of autosomal-recessive disease-causing mutations in a founder population.
Chong JX, Ouwenga R, Anderson RL, Waggoner DJ, Ober C
(2012 Oct) Am J Hum Genet. 2012 Oct 5;91(4):608-20. doi: 10.1016/j.ajhg.2012.08.007. Epub 2012 Sep 13. 22981120 (Full Text)

Meta-analysis of genome-wide association studies of asthma in ethnically diverse North American populations.
Torgerson DG, Ampleford EJ, Chiu GY, Gauderman WJ, Gignoux CR, Graves PE, Himes BE, Levin AM, Mathias RA, Hancock DB, Baurley JW, Eng C, Stern DA, Celedon JC, Rafaels N, Capurso D, Conti DV, Roth LA, Soto-Quiros M, Togias A, Li X, Myers RA, Romieu I, Van Den Berg DJ, Hu D, Hansel NN, Hernandez RD, Israel E, Salam MT, Galanter J, Avila PC, Avila L, Rodriquez-Santana JR, Chapela R, Rodriguez-Cintron W, Diette GB, Adkinson NF, Abel RA, Ross KD, Shi M, Faruque MU, Dunston GM, Watson HR, Mantese VJ, Ezurum SC, Liang L, Ruczinski I, Ford JG, Huntsman S, Chung KF, Vora H, Li X, Calhoun WJ, Castro M, Sienra-Monge JJ, del Rio-Navarro B, Deichmann KA, Heinzmann A, Wenzel SE, Busse WW, Gern JE, Lemanske RF Jr, Beaty TH, Bleecker ER, Raby BA, Meyers DA, London SJ, Gilliland FD, Burchard EG, Martinez FD, Weiss ST, Williams LK, Barnes KC, Ober C, Nicolae DL
(2011 Jul) Nat Genet. 2011 Jul 31;43(9):887-92. doi: 10.1038/ng.888. 21804549 (Full Text)