Christopher D Brown, Ph.D.

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Assistant Professor of Genetics
Department: Genetics

Contact information
Clinical Research Bldg, 538B
415 Curie Blvd
Philadelphia, PA 19103
Office: 650-468-5731
Lab: (215) 746-4049
B.S. (Biochemistry)
University of Nebraska-Lincoln, 2001.
Ph.D. (Genetics)
Stanford University, 2007.
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Description of Research Expertise

Our research focuses on how genotypes produce phenotypes and how they vary and evolve. We are particularly interested in identifying and experimentally characterizing functional human non-coding sequence variation. We aim to understand the mechanisms through which non-coding variants function, with an emphasis on understanding the mechanisms underlying complex human disease. We leverage a combination of high throughput experimental and computational approaches. We are currently focused on massively parallelizing assays that interrogate non-coding DNA function and applying these approaches to the fine-mapping of the causal variants underlying human disease.

Selected Publications

Innocenti F*, Cooper GM*, Stanaway IB, Gamazon ER, Smith JD, Mirkov S, Ramirez J, Liu W, Lin YS, Maloney C, Force Aldred S,Trinklein ND, Schuetz E, Nickerson DA, Thummel KE, Rieder MJ, Rettie AE, Ratain MJ, Cox NJ, Brown CD: Identification, replication, and functional fine-mapping of expression quantitative trait loci in primary human liver tissue. PLoS genetics 7(5): e1002078, May 2011.

Nègre N*, Brown CD*, Ma L*, Bristow CA*, Miller SW*, Wagner U*, Kheradpour P, Eaton ML, Loriaux P, Sealfon R, Li Z, Ishii H, Spokony RF, Chen J, Hwang L, Cheng C, Auburn RP, Davis MB, Domanus M, Shah PK, Morrison CA, Zieba J, Suchy S, Senderowicz L, Victorsen A, Bild NA, Grundstad AJ, Hanley D, MacAlpine DM, Mannervik M, Venken K, Bellen H, White R, Gerstein M, Russell S, Grossman RL, Ren B, Posakony JW, Kellis M, White KP: A cis-regulatory map of the Drosophila genome. Nature 471(7339): 527-31, Mar 2011.

Nègre N*, Brown CD*, Shah P, Kheradpour P, Morrison CA, Henikoff JG, Feng X, Ahmad K, Russell S, White RAH, Stein L, Henikoff S, Kellis M, White KP.: A comprehensive map of insulator elements for the Drosophila genome. PLoS genetics 6(1): e1000814, Jan 2010.

The modENCODE Consortium, et al.: Identification of functional elements and regulatory circuits by Drosophila modENCODE. Science 330(6012): 1787-97, Dec 2010.

Brown CD, Johnson DS, Sidow A: Functional architecture and evolution of transcriptional elements that drive gene coexpression. Science 317(5844): 1557-60, Sep 2007.

Cooper GM and Brown CD: Qualifying the relationship between sequence conservation and molecular function. Genome research 18(2): 201-5, Feb 2008.

Tao Y, Ruan J, Yeh SH, Lu X, Wang Y, Zhai W, Cai J, Ling S, Gong Q, Chong Z, Qu Z, Li Q, Liu J, Yang J, Zheng C, Zeng C, Wang HY, Zhang J, Wang SH, Hao L, Dong L, Li W, Sun M, Zou W, Yu C, Li C, Liu G, Jiang L, Xu J, Huang H, Li C, Mi S, Zhang B, Chen B, Zhao W, Hu S, Zhuang SM, Shen Y, Shi S, Brown CD, White KP, Chen DS, Chen PJ, Wu CI.: Rapid growth of a hepatocellular carcinoma and the driving mutations revealed by cell-population genetic analysis of whole-genome data. Proceedings of the National Academy of Sciences of the United States of America 108(29): 12042-7, July 2011.

Johnson DS, Davidson B, Brown CD, Smith WC, Sidow A: Noncoding regulatory sequences of Ciona exhibit strong correspondence between evolutionary constraint and functional importance. Genome research 14(12): 2448-56, Dec 2004.

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(6): 975-83, Feb 2013.

Hekman KE, Yu G*, Brown CD*, Zhu H, Du X, Gervin K, Undlien DE, Peterson A, Stevanin G, Clark HB, Pulst S, Bird T, White KP, Gomez CM: A conserved eEF2 coding variant in SCA26 leads to loss of translational fidelity and increased susceptibility to proteostatic insult. Human molecular genetics 21(26): 5472-83, Dec 2012.

Doré LC, Chlon TM, Brown CD, White KP, Crispino JD: Chromatin occupancy analysis reveals genome-wide GATA factor switching during hematopoiesis. Blood 119(16): 3724-33, Apr 2012.

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: Analysis of Drosophila segmentation network identifies a JNK pathway factor overexpressed in kidney cancer. Science 323(5918): 1218-22, Feb 2009.

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Last updated: 11/07/2017
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