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Stuart Brown

Professor - NYU School of Medicine View Biosketch →

I am the leader of a small genome sequencing informatics group at NYU School of Medicine. We collaborate as data analysis specialists with a wide range of investigators on Next-Generations DNA sequencing projects including: RNA-seq, ChIP-seq, cancer genome mutation finding (with DNA and RNA data), and de novo genome sequencing of non-model organisms.

Position - Company  
Adjunct Professor - Fordham University

Adjunct Professor in Dept. of Computer Science - teach bioinformatics course.

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Jan 2004 - Present
Professor - NYU School of Medicine

Associate Professor

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1997 - Present


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2007 - Present
group leader - Center for Health Informatics and Bioinformatics New York University Langone Medical Center 2013 - Present
Degree - University  
Doctor of Philosophy (Ph.D.), Molecular Biology - Cornell University 1985 - 1992
BS, Botany - University of Michigan 1980 - 1984
Publication Info
FIREWACh: high-throughput functional detection of transcriptional regulatory modules in mammalian cells. Murtha M, Tokcaer-Keskin Z, Tang Z, Strino F, Chen X, Wang Y, Xi X and 5 others Nat Methods. 11(5):559-65. doi: 10.1038/nmeth.2885. May 2014. View on PubMed.
Global reprogramming of the cellular translational landscape facilitates cytomegalovirus replication. McKinney C, Zavadil J, Bianco C, Shiflett L, Brown S, Mohr I Cell Rep. 6(1):9-17. doi: 10.1016/j.celrep.2013.11.045. January 16, 2014. View on PubMed.
Comparative genomics of oral isolates of Streptococcus mutans by in silico genome subtraction does not reveal accessory DNA associated with severe early childhood caries. Argimón S, Konganti K, Chen H, Alekseyenko AV, Brown S, Caufield PW Infect Genet Evol. 21:269-78. doi: 10.1016/j.meegid.2013.11.003. January 2014. View on PubMed.
Combining multiple ChIP-seq peak detection systems using combinatorial fusion. Schweikert C, Brown S, Tang Z, Smith PR, Hsu DF BMC Genomics. 13 Suppl 8:S12. doi: 10.1186/1471-2164-13-S8-S12. December 17, 2012. View on PubMed.
Genetic inactivation of the polycomb repressive complex 2 in T cell acute lymphoblastic leukemia. Ntziachristos P, Tsirigos A, Van Vlierberghe P, Nedjic J, Trimarchi T, Flaherty MS, Ferres-Marco D and 22 others Nat Med. 18(2):298-301. doi: 10.1038/nm.2651. February 6, 2012. View on PubMed.
Effects of nickel treatment on H3K4 trimethylation and gene expression. Tchou-Wong KM, Kiok K, Tang Z, Kluz T, Arita A, Smith PR, Brown S, Costa M PLoS One. 6(3):e17728. doi: 10.1371/journal.pone.0017728. March 24, 2011. View on PubMed.
Diversity of 16S rRNA genes within individual prokaryotic genomes. Pei AY, Oberdorf WE, Nossa CW, Agarwal A, Chokshi P, Gerz EA, Jin Z and 9 others Appl Environ Microbiol. 76(12):3886-97. doi: 10.1128/AEM.02953-09. June 2010. View on PubMed.
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