Kevin P White

Mapping the regulatory wiring diagrams encoded in genomes is key to understanding development, disease and evolution. The White lab studies the coordinated action of networks of genes that control developmental and evolutionary processes. We have particular focus on building genome-wide models of transcriptional networks, and we use an integrated approach that makes use of gene expression microarrays, large-scale protein-protein and protein-DNA interaction analyses, systematic RNAi analysis and high throughput polymorphism detection. By applying our methods to both closely and distantly related species, we are investigating how conserved molecular networks control basic developmental processes and how variation in molecular networks translates into variation in organismal phenotypes. We are particularly interested in the transcriptional networks controlled by nuclear receptor proteins in development and disease. We also are studying the transcriptional mechanisms involved in patterning early embryos. We make use of the compact Drosophila genome and the genomes of related species as model systems for many of our studies, and recently we have also begun to apply these genomics and computational approaches to investigations of the human genome.

Mapping the regulatory wiring diagrams encoded in genomes is key to understanding development, disease and evolution. The White lab studies the coordinated action of networks of genes that control developmental and evolutionary processes. We have particular focus on building genome-wide models of transcriptional networks, and we use an integrated approach that makes use of gene expression microarrays, large-scale protein-protein and protein-DNA interaction analyses, systematic RNAi analysis and high throughput polymorphism detection. By applying our methods to both closely and distantly related species, we are investigating how conserved molecular networks control basic developmental processes and how variation in molecular networks translates into variation in organismal phenotypes. We are particularly interested in the transcriptional networks controlled by nuclear receptor proteins in development and disease. We also are studying the transcriptional mechanisms involved in patterning early embryos. We make use of the compact Drosophila genome and the genomes of related species as model systems for many of our studies, and recently we have also begun to apply these genomics and computational approaches to investigations of the human genome.

Genomic antagonism between retinoic acid and estrogen signaling in breast cancer. Hua S, Kittler R, White KP. Cell. 2009 Jun 26;137(7):1259-71.  

Unlocking the secrets of the genome. Celniker SE, Dillon LA, Gerstein MB, Gunsalus KC, Henikoff S, Karpen GH, Kellis M, Lai EC, Lieb JD, MacAlpine DM, Micklem G, Piano F, Snyder M, Stein L, White KP, Waterston RH; modENCODE Consortium. Nature. 2009 Jun 18;459(7249):927-30.  

Versatile P[acman] BAC libraries for transgenesis studies in Drosophila melanogaster. Venken KJ, Carlson JW, Schulze KL, Pan H, He Y, Spokony R, Wan KH, Koriabine M, de Jong PJ, White KP, Bellen HJ, Hoskins RA. Nat Methods. 2009 May 24.  

Versatile P[acman] BAC libraries for transgenesis studies in Drosophila melanogaster. Venken KJ, Carlson JW, Schulze KL, Pan H, He Y, Spokony R, Wan KH, Koriabine M, de Jong PJ, White KP, Bellen HJ, Hoskins RA. Nat Methods. 2009 May 24.  

Genomic mapping of binding regions for the Ecdysone receptor protein complex. Gauhar Z, Sun LV, Hua S, Mason CE, Fuchs F, Li TR, Boutros M, White KP. Genome Res. 2009 Jun;19(6):1006-13.  

Analysis of Drosophila segmentation network identifies a JNK pathway factor overexpressed in kidney cancer Liu J, Ghanim M, Xue L, Brown CD, Iossifov I, Angeletti C, Hua S, Nègre N, Ludwig M, Stricker T, Al-Ahmadie HA, Tretiakova M, Camp RL, Perera-Alberto M, Rimm DL, Xu T, Rzhetsky A, White KP. Science. 2009 Feb 27;323(5918):1218-22.  

Long-lived Indy induces reduced mitochondrial reactive oxygen species production and oxidative damage. Neretti N, Wang PY, Brodsky AS, Nyguyen HH, White KP, Rogina B, Helfand SL. Proc Natl Acad Sci U S A. 2009 Feb 17;106(7):2277-82.  

Mechanisms underlying hypoxia tolerance in Drosophila melanogaster: hairy as a metabolic switch. Zhou D, Xue J, Lai JC, Schork NJ, White  

Developmental stage and level of codon usage bias in Drosophila. Vicario S, Mason CE, White KP, Powell JR. Mol Biol Evol. 2008 Nov;25(11):2269-77.  

Genomic analysis of estrogen cascade reveals histone variant H2A.Z associated with breast cancer progression. Hua S, Kallen CB, Dhar R, Baquero MT, Mason CE, Russell BA, Shah PK, Liu J, Khramtsov A, Tretiakova MS, Krausz TN, Olopade OI, Rimm DL, White KP. Mol Syst Biol. 2008;4:188.  

Genomic antagonism between retinoic acid and estrogen signaling in breast cancer. Hua S, Kittler R, White KP. Cell. 2009 Jun 26;137(7):1259-71.  

Unlocking the secrets of the genome. Celniker SE, Dillon LA, Gerstein MB, Gunsalus KC, Henikoff S, Karpen GH, Kellis M, Lai EC, Lieb JD, MacAlpine DM, Micklem G, Piano F, Snyder M, Stein L, White KP, Waterston RH; modENCODE Consortium. Nature. 2009 Jun 18;459(7249):927-30.  

Versatile P[acman] BAC libraries for transgenesis studies in Drosophila melanogaster. Venken KJ, Carlson JW, Schulze KL, Pan H, He Y, Spokony R, Wan KH, Koriabine M, de Jong PJ, White KP, Bellen HJ, Hoskins RA. Nat Methods. 2009 May 24.  

Versatile P[acman] BAC libraries for transgenesis studies in Drosophila melanogaster. Venken KJ, Carlson JW, Schulze KL, Pan H, He Y, Spokony R, Wan KH, Koriabine M, de Jong PJ, White KP, Bellen HJ, Hoskins RA. Nat Methods. 2009 May 24.  

Genomic mapping of binding regions for the Ecdysone receptor protein complex. Gauhar Z, Sun LV, Hua S, Mason CE, Fuchs F, Li TR, Boutros M, White KP. Genome Res. 2009 Jun;19(6):1006-13.