Kevin WHITE

The White lab studies the coordinated action of networks of genes that control developmental, disease and evolutionary processes. We have particular focus on discovery of genetic factors that contribute to cancer development and progression, and on building genome-wide models of transcriptional networks.

kpwhite@uchicago.edu

Biosketch

The White lab studies the coordinated action of networks of genes that control developmental, disease and evolutionary processes. We have particular focus on discovery of genetic factors that contribute to cancer development and progression, and on building genome-wide models of transcriptional networks. We use an integrated approach that makes use of genome and transcriptome sequencing, large-scale protein-protein and protein-DNA interaction analyses, measurement of chromatin state, systematic RNAi and CRISPR mutational analysis, and high throughput functional analyses of genomic regulatory elements. We are also particularly interested in the transcriptional networks controlled by nuclear receptor proteins in development and disease. We also have recently built novel algorithms for discovering tumor drivers and tumor risk factors from large-scale sequencing data, such as those available from The Cancer Genome Atlas.

Principal Associate, Cancer Science Institute of Singapore, National University of Singapore
B. James and Karen Frank Family Professor of Human Genetics, Ecology and Evolution, and Medicine; Director, Institute for Genomics and Systems Biology The University of Chicago

Year(s) Degree (if applicable) Institute
1998 Ph.D. Developmental Biology Stanford University
1993 B.Sc., M.Sc. Biology Yale University
2006 – Present Director, Institute for Genomics and Systems Biology, The University of Chicago
2006 – Present Professor, The University of Chicago Dept. Human Genetics
2004 – 2006 Assoc. Prof., Yale University Dept. Genetics
2001 – 2004 Assist. Prof., Yale University Dept. Genetics
1998 – 2000 Postdoctoral Fellow, Stanford Genome Technology Center and Dept. Biochemsitry
2007 – 2009 Pritzker Fellow, The University of Chicago Pritzker School of Medicine
2006 – 2009 Investigator, Searle Chicago Biomedical Consortium
2008 Crain’s Business 40 under 40
2004 – 2008 Arnold and Mabel Beckman Young Investigator
2003 – 2006 W. M. Keck Distinguished Young Investigator in Biomedical Sciences
2000 – 2005 NIH/NHGRI Genome Scholar Award
1998 – 2000 Helen Hay Whitney Foundation Fellow, Genome Technology Center, Stanford University
1993 – 1998 HHMI Predoctoral Fellowship, Department of Developmental Biology, Stanford University
1993 B.S., M.S. awarded magna cum laude, Phi Beta Kappa, Belknap Award for Outstanding Graduating Senior in the Natural Sciences at Yale University

Research

Gene regulatory systems, cancer genomics and systems biology, computational biology, statistical genomics, precision oncology and medicine, ‘big data’ analytics and infrastructure.

Selected Publications

1. Xiaoyue Wang, Audrey Fu, Megan E. McNerney and Kevin P. White. Widespread genetic epistasis among cancer genes. Nature Comm., 2014 Nov 19;5:4828.

2. Alan P. Boyle*1, Carlos L. Araya*1, Cathleen Brdlik1, Philip Cayting1, Chao Cheng5, Yong Cheng1, Kathryn Gardner6, LaDeana Hillier8, Judith Janette6, Lixia Jiang1, Dionna Kasper6, Trupti Kawli1, Pouya Kheradpour3, Anshul Kundaje2,3, Jingyi Jessica Li9,10, Lijia Ma4, Wei Niu6, E. Jay Rehm4, Joel Rozowsky5, Matthew Slattery4, Rebecca Spokony4, Robert Terrell8, Dionne Vafeados8, Daifeng Wang5, Peter Weisdepp8, Yi-Chieh Wu3, Dan Xie1, Koon-Kiu Yan5, Elise A. Feingold7, Peter J. Good7, Michael J. Pazin7, Haiyan Huang9, Peter J. Bickel9, Steven E. Brenner11,12, Valerie Reinke6, Robert H. Waterston8, Mark Gerstein5, Kevin P. White4**, Manolis Kellis3**, Michael Snyder1** and the modENCODE and ENCODE Consortia. Comparative analysis of regulatory information and circuits across distant species. Nature, 2014 Aug 28;512(7515):453-6.

3. Guoqiang Li, Weimin Ci, Subhradip Karmakar, Ke Chen, Ruby Dhar, Zhixiang Fan, Zhongqiang Guo, Jing Zhang, Yuwen Ke, Lu Wang, Min Zhuang, Shengdi Hu, Xuesong Li, Liqun Zhou, Xianghong Li, Matthew F. Calabrese, Edmond R. Watson, Sandip Prasad, Carrie Rinker-Schaeffer, Scott E. Eggener, Thomas Stricker, Yong Tian, Brenda A. Schulman, Jiang Liu, Kevin P. White. SPOP promotes tumorigenesis by acting as a key regulatory hub in kidney cancer. Cancer Cell, 25, 1–14, 2014.

4. Blair DR, Lyttle CS, Mortensen JM, Bearden CF, Jensen AB, Khiabanian H, Melamed R, Rabadan R, Bernstam EV, Brunak S, Jensen LJ, Nicolae D, Shah NH, Grossman RL, Cox NJ, White KP, Rzhetsky A. A nondegenerate code of deleterious variants in mendelian Loci contributes to complex disease risk. Cell. 2013 Sep 26;155(1):70-80.

5. Kittler R, Zhou J, Hua S, Ma L, Liu Y, Pendleton E, Cheng C, Gerstein M, White KP. A comprehensive nuclear receptor network for breast cancer cells. Cell Rep. 3:538-51. 2013

6. McNerney ME, Brown CD, Wang X, Bartom ET, Karmakar S, Bandlamudi C, Yu S, Ko J, Sandall BP, Stricker T, Anastasi J, Grossman RL, Cunningham JM, Le Beau MM, White KP. CUX1 is a haploinsufficient tumor suppressor gene on chromosome 7 frequently inactivated in acute myeloid leukemia. Blood. 121: 975-83. doi: 10.1182/blood-2012-04-426965. 2013

7. The Cancer Genome Atlas Network. Comprehensive Molecular Portraits of Human Breast Tumors, 490:61-70. 2012

8. Nègre N*, Brown CD*, Ma L*, Bristow CA*, Miller S*, Kheradpour P, Loriaux P, Sealfon R, Li Z, Ishii H, Spokony R, Chen J, Hwang L, Wagner U, Auburn R, Shah PK, Morrison CA, Zieba J, Suchy S, Senderowicz L, Bild NA, Grundstad AJ, Hanley D, Mannervik M, Venken K, Bellen H, White R, Russell S, Grossman RL, Ren B, Posakony JW, Kellis M, White KP. A cis-regulatory map for the Drosophila genome. Mar 24; 471:527-31. 2011.

9. Hua SJ, Kittler R, and White KP. Genomic Antagonism between Retinoic Acid and Estrogen Signaling in Breast Cancer. Cell. 137:1259-71, 2009.

10. Jiang Liu , Murad Ghanim , Lei Xue, Christopher D. Brown, Ivan Iossifov, Cesar Angeletti, Sujun Hua, Nicolas Nègre, Michael Ludwig, Thomas Stricker, Hikmat A. Al-Ahmadie, Maria Tretiakova, Robert L. Camp, Montse Perera-Alberto, David L. Rimm, Tian Xu, Andrey Rzhetsky and Kevin P. White. Analysis of Drosophila segmentation network identifies a JNK pathway factor overexpressed in kidney cancer. Science. 27; 323:1218-22. 2009.