Stuart M. Brown

Stuart M. Brown, PhD

Associate Professor, Department of Cell Biology

Bioinformatics, Genomics, genome sequencing

Bioinformatics addresses the use of computers for the acquisition, management, and analysis of biological information. The explosion of interest in bioinformatics in the past few years has been driven by the tremendous growth of DNA sequencing technology. Investigators use sequencing techniques for a variety of genomics applications but require bioinformatics skills to support this work.

I act as bioinformatics consultant for NYU Medical Center, collaborating as needed on a wide range of research projects. The extent of these collaborations ranges from a few consultation meetings to co-investigator on NIH grants. I am currently working on projects that include metagenomics (Human Microbiome Project), the genetic variation in hospital isolates of Staph bacteria, de novo genome sequencing of non-model organisms, and analysis of RNA-seq data from a variety of clinical and basic science research projects. Other projects that I have recently worked on include the draft genome of the coffee borer beetle, discovery of human papiloma virus in human tissue DNA samples, and an evolutionary analysis of the mammalian glucosidase gene family.



Academic office

227 East 30th Street

Seventh Floor

New York, NY 10016

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These focus areas and their associated publications are derived from medical subject headings from PubMed.
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Associate Professor, Department of Cell Biology

Dir Resh Computing Resource & Biofrmatics

Dir of the Sequencing Informatics Group of CHIBI

Oper Dir Best Prac Integrative Svc Core CHIBI

PhD from Cornell University

Vega, Fernando E; Brown, Stuart M; Chen, Hao; Shen, Eric; Nair, Mridul B; Ceja-Navarro, Javier A; Brodie, Eoin L; Infante, Francisco; Dowd, Patrick F; Pain, Arnab

Scientific reports. 2015 Jul 31; 5:12525-12525

Murtha, Matthew; Tokcaer-Keskin, Zeynep; Tang, Zuojian; Strino, Francesco; Chen, Xi; Wang, Yatong; Xi, Xiangmei; Basilico, Claudio; Brown, Stuart; Bonneau, Richard; Kluger, Yuval; Dailey, Lisa

Nature methods. 2014 May; 11(5):559-565

Tchou-Wong, Kam-Meng; Kiok, Kathrin; Tang, Zuojian; Kluz, Thomas; Arita, Adriana; Smith, Phillip R; Brown, Stuart; Costa, Max

PLoS one. 2011 Mar 24; 6(3):e17728-e17728

Santori, Fabio R; Brown, Stuart M; Vukmanovic, Stanislav

Immunological reviews. 2002 Dec; 190:146-160

Aliferis, C F; Alekseyenko, A V; Aphinyanaphongs, Y; Brown, S; Fenyo, D; Fu, L; Shen, S; Statnikov, A; Wang, J

Yearbook of medical informatics. 2011; 6:146-155

Wang, Qian; Brown, Stuart; Roos, David S; Nussenzweig, Victor; Bhanot, Purnima

Molecular & biochemical parasitology. 2004 Sep; 137(1):161-168

Cloud-based next-generation sequencing infomatics

Krampis, Konstantinos; Efstathiadis, Efstratios; Brown, Stuart M

Next-generation DNA sequencing informatics. Cold Spring Harbor, New York : Cold Spring Harbor Laboratory Press, 2015. 2nd edition. p.361-370. (1681522)

Pelzek, Adam J; Shopsin, Bo; Radke, Emily E; Tam, Kayan; Ueberheide, Beatrix M; Fenyö, David; Brown, Stuart M; Li, Qianhao; Rubin, Ada; Fulmer, Yi; Chiang, William K; Hernandez, David N; El Bannoudi, Hanane; Sause, William E; Sommerfield, Alexis; Thomsen, Isaac P; Miller, Andy O; Torres, Victor J; Silverman, Gregg J

MBio. 2018 Mar 13; 9(2):