ImmuneRegulation: a web-based tool for identifying human immune regulatory elements Selim Kalayci, Myvizhi Esai Selvan, Irene Ramos, Chris Cotsapas, Eva Harris, Eun-Young Kim, Ruth R Montgomery, Gregory Poland, Bali Pulendran, John S Tsang, Robert J Klein, Zeynep H Gümüş, ImmuneRegulation: a web-based tool for identifying human immune regulatory elements, Nucleic Acids Research, , gkz450.
Gene expression elucidates functional impact of polygenic risk for schizophrenia. Fromer M, Roussos P, Sieberts SK, Johnson JS, Kavanagh DH, Perumal TM, Ruderfer DM, Oh EC, Topol A, Shah HR, Klei LL, Kramer R, Pinto D, Gümüş ZH, Cicek AE, Dang KK, Browne A, Lu C, Xie L, Readhead B, Stahl EA, Xiao J, Parvizi M, Hamamsy T, Fullard JF, Wang YJ, Mahajan MJ, Derry JMJ, Dudley JT, Hemby SE, Logsdon BA, Talbot K, Raj T, Bennett DA, De Jager PL, Zhu J, Zhang B, Sullivan PF, Chess A, Purcell SM, Shinobu LA, Mangravite LM, Toyoshiba H, Gur RE, Hahn CG, Lewis DA, Haroutunian V, Peters MA, Lipska BK, Buxbaum JD, Schadt E, Hirai K, Roeder K, Brennand KJ, Katsanis N, Domenici E, Devlin B and Sklar P. Nature Neuroscience 2016; 19:1442–1453.
A Novel Genetic Variant in Long Non-coding RNA Gene NEXN-AS1 is Associated with Risk of Lung Cancer. Yuan H, Liu H, Liu Z, Owzar K, Han Y, Su L, Wei Y, Hung RJ, McLaughlin J, Brhane Y, Brennan P, Bickeboeller H, Rosenberger A, Houlston RS, Caporaso N, Landi MT, Heinrich J, Risch A, Christiani DA, Gümüş ZH, Klein RJ, Amos CI and Wei Q.Scientific Reports 2016; 6, Article number 34234, doi:10.1038/srep34234.
miR-1269 Promotes Metastasis and Forms a Positive Feedback Loop with TGF-β. Bu P, Wang L, Chen KY, Rakhilin N, Sun J, Closa A, Tung KL, King S, Varanko AK, Xu Y, Chen JH, Zessin AS, Shealy J, Cummings B, Hsu D, Lipkin SM, Moreno V, Gümüş ZH and Shen X. Nature Communications. 2015; 6:6879. doi: 10.1038/ncomms7879
Integrative Annotation of variants from 1092 Humans: application to cancer genomics. Khurana E, Fu Y, Colonna V, Mu XJ, Kang HM, Lappalainen T, Sboner A, Lochovsky L, Chen J, Harmanci A, Das J, Abyzov A, Balasubramanian S, Beal K, Chakravarty D, Challis D, CHen Y, Clarke D, Clarke L, Cunningham F, Evani US, Flicek P, Fragoza R, Garrison E, Gibbs R, Gümüş ZH, Herrero J, Kitabayashi N, Kong Y, Lage K, Liluashvili V, Lipkin SM, MacArthur DG, Marth G, Muzny D, Pers TH, Ritchie GR, Rosenfeld JA, Sisu C, Wei X, Wilson M, Xue Y, Yu F, 1000 Genomes Project Consortium, Dermitzakis ET, Yu H, Rubin MA, Tyler-Smith C, Gerstein M. Science. 2013 Oct 3, 342(6154):1235587
Effects of cigarette smoke on the human oral mucosal transcriptome. Boyle JO*, Gümüş ZH*, Kacker A, Choksi VL, Bocker JM, Zhou KK, Yantiss RK, Hughes DB, Du B, Judson BL, Subbaramaiah K, Dannenberg AJ. Cancer Prev Res. 2010 Mar; 3(3):266-78. * Co-first author; cover article and featured with a perspectives article
Global optimization for bilevel programming problems and applications. Gümüş ZH. PhD Thesis, Department of Chemical Engineering, Princeton University, 2003.
