Stuart M. Brown

Stuart M. Brown, PhD

Associate Professor, Department of Cell Biology

Bioinformatics, Genomics, genome sequencing

Bioinformatics is the use of computers for acquiring, managing, and analyzing biological information. Tremendous growth in DNA sequencing technology over the past few years has driven an explosion of interest in bioinformatics. Investigators use sequencing techniques for a variety of genomics applications, but bioinformatics skills are required to support this work.

I serve as a bioinformatics consultant for NYU Langone, collaborating as needed on a wide range of research projects. My role in these collaborations ranges from a few consultation meetings to serving as coinvestigator on National Institutes of Health grants.

These are the projects I am working on currently:

  • metagenomics analysis for the Human Microbiome Project
  • analysis of genetic variation in hospital isolates of Staphylococcus bacteria
  • de novo genome sequencing of nonmodel organisms
  • 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 papillomavirus in DNA samples from human tissue, and an evolutionary analysis of the mammalian glucosidase gene family.



Academic office

227 East 30th Street

Seventh Floor

New York, NY 10016

Is this your profile?
These focus areas and their associated publications are derived from medical subject headings from PubMed.
represents one publication

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)

Hao, Yuhan; Yang, Liying; Galvao Neto, Antonio; Amin, Milan R; Kelly, Dervla; Brown, Stuart M; Branski, Ryan C; Pei, Zhiheng

Bioinformatics. 2018 Jun 15; 34(12):1986-1995