Stuart M. Brown

Biosketch / Results /

Stuart M. Brown, Ph.D.

Associate Professor; Dir of the Sequencing Informatics Group of CHIBI; Oper Dir Best Prac Integrative Svc Core CHIBI; Dir Resh Computing Resource & Biofrmatics
Department of Cell Biology (Cell Biology)

Contact Info

227 East 30th Street
Center for Health Informatics and Bioinformatics Floor 7 Room 747
Translational Research Building
New York, NY 10016


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— Dr. Brown was a Postdoctoral Fellow in Plant Molecular Biology and the University of Manitoba and subsequently a Research Scientist at the USDA-ARS Plant Genetics Resources Unit in Griffin, GA, PostDoctoral Training
1992 — Cornell University, Graduate Education

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All data from NYU Health Sciences Library Faculty Bibliography — -


Comparative genomics of oral isolates of Streptococcus mutans by in silico genome subtraction does not reveal accessory DNA associated with severe early childhood caries
Argimon, S; Konganti, K; Chen, H; Alekseyenko, A V; Brown, S; Caufield, P W
2014 January 2014;21(pp):269-278, Infection, genetics & evolution
— id: 752102, year: 2014, vol: 21, page: 269, stat: Journal Article,

Identification of a Face Enhancer Reveals Direct Regulation of LIM homeobox 8 (Lhx8) by Wingless-Int (WNT)/beta-catenin Signaling
Landin Malt, Andre; Cesario, Jeffry M; Tang, Zuojian; Brown, Stuart; Jeong, Juhee
2014 Sep;:108-108, Journal of biological chemistry
— id: 1173362, year: 2014, vol: , page: 108, stat: Journal Article,

Global reprogramming of the cellular translational landscape facilitates cytomegalovirus replication
McKinney, Caleb; Zavadil, Jiri; Bianco, Christopher; Shiflett, Lora; Brown, Stuart; Mohr, Ian
2014 Jan;6(1):9-17, Cell reports
— id: 759792, year: 2014, vol: 6, page: 9, stat: Journal Article,

FIREWACh: high-throughput functional detection of transcriptional regulatory modules in mammalian cells
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
2014 May;11(5):559-565, Nature methods
— id: 970072, year: 2014, vol: 11, page: 559, stat: Journal Article,

Increased risk of hepatic decompensation and hepatocellular carcinoma in HIV/HCV-co-infected patients compared to HCV-mono-infected patients despite combination antiretroviral therapy
Lo, Re V; Tate, J; Kallan, M; Lim, J; Goetz, M; Klein, M; Rimland, D; Rodriguez-Barradas, M; Butt, A; Gibert, C; Brown, S; Kostman, J; Strom, B; Reddy, R; Justice, A; Localio, R
2012 24 Oct 2012;15:47-47, Journal of the International AIDS Society
— id: 688362, year: 2012, vol: 15, page: 47, stat: Journal Article,

Genetic inactivation of the polycomb repressive complex 2 in T cell acute lymphoblastic leukemia
Ntziachristos, Panagiotis; Tsirigos, Aristotelis; Vlierberghe, Pieter Van; Nedjic, Jelena; Trimarchi, Thomas; Flaherty, Maria Sol; Ferres-Marco, Dolors; da Ros, Vanina; Tang, Zuojian; Siegle, Jasmin; Asp, Patrik; Hadler, Michael; Rigo, Isaura; Keersmaecker, Kim De; Patel, Jay; Huynh, Tien; Utro, Filippo; Poglio, Sandrine; Samon, Jeremy B; Paietta, Elisabeth; Racevskis, Janis; Rowe, Jacob M; Rabadan, Raul; Levine, Ross L; Brown, Stuart; Pflumio, Francoise; Dominguez, Maria; Ferrando, Adolfo; Aifantis, Iannis
2012 ;18(2):298-301, Nature medicine
— id: 158681, year: 2012, vol: 18, page: 298, stat: Journal Article,

Trends and developments in bioinformatics in 2010: prospects and perspectives
Aliferis, C F; Alekseyenko, A V; Aphinyanaphongs, Y; Brown, S; Fenyo, D; Fu, L; Shen, S; Statnikov, A; Wang, J
2011 ;6(1):146-155, Yearbook of medical informatics
— id: 174460, year: 2011, vol: 6, page: 146, stat: Journal Article,

A Molecular Epidemiological Study of var Gene Diversity to Characterize the Reservoir of Plasmodium falciparum in Humans in Africa
Chen, Donald S; Barry, Alyssa E; Leliwa-Sytek, Aleksandra; Smith, Terry-Ann; Peterson, Ingrid; Brown, Stuart M; Migot-Nabias, Florence; Deloron, Philippe; Kortok, Moses M; Marsh, Kevin; Daily, Johanna P; Ndiaye, Daouda; Sarr, Ousmane; Mboup, Souleymane; Day, Karen P
2011 ;6(2):e16629-e16629, PLoS one
— id: 124110, year: 2011, vol: 6, page: e16629, stat: Journal Article,

Effects of Nickel Treatment on H3K4 Trimethylation and Gene Expression
Tchou-Wong, Kam-Meng; Kiok, Kathrin; Tang, Zuojian; Kluz, Thomas; Arita, Adriana; Smith, Phillip R; Brown, Stuart; Costa, Max
2011 ;6(3):e17728-e17728, PLoS one
— id: 130306, year: 2011, vol: 6, page: e17728, stat: Journal Article,

Constitutive mTORC1 activation by a herpesvirus Akt surrogate stimulates mRNA translation and viral replication
Chuluunbaatar, Uyanga; Roller, Richard; Feldman, Morris E; Brown, Stuart; Shokat, Kevan M; Mohr, Ian
2010 Dec 1;24(23):2627-2639, Genes & development
— id: 114863, year: 2010, vol: 24, page: 2627, stat: Journal Article,

Diversity of 16S rRNA genes within individual prokaryotic genomes
Pei, Anna Y; Oberdorf, William E; Nossa, Carlos W; Agarwal, Ankush; Chokshi, Pooja; Gerz, Erika A; Jin, Zhida; Lee, Peng; Yang, Liying; Poles, Michael; Brown, Stuart M; Sotero, Steven; Desantis, Todd; Brodie, Eoin; Nelson, Karen; Pei, Zhiheng
2010 Jun;76(12):3886-3897, Applied & environmental microbiology
— id: 156291, year: 2010, vol: 76, page: 3886, stat: Journal Article,

Targeted deletion of the genes encoding NTH1 and NEIL1 DNA N-glycosylases reveals the existence of novel carcinogenic oxidative damage to DNA
Chan, Michael K; Ocampo-Hafalla, Maria T; Vartanian, Vladimir; Jaruga, Pawel; Kirkali, Guldal; Koenig, Karen L; Brown, Stuart; Lloyd, R Stephen; Dizdaroglu, Miral; Teebor, George W
2009 Jul 4;8(7):786-794, DNA repair (Amsterdam)
— id: 100475, year: 2009, vol: 8, page: 786, stat: Journal Article,

Geographic population structure of the immune evasion (var) genes of Plasmodium falciparum
Barry, AE; Smith, TA; Chen, D; Sytek, AL; Imrie, H; Tavul, L; Migot-Nabias, F; Brown, SM; Deloron, P; Daily, J; Marsh, K; McVean, G; Day, KP
2008 JAN ;38(1):S38-S39, International journal for parasitology
— id: 76166, year: 2008, vol: 38, page: S38, stat: Journal Article,

Gene expression profiles of bronchoalveolar cells in pulmonary TB
Raju, Bindu; Hoshino, Yoshihiko; Belitskaya-Levy, Ilana; Dawson, Rod; Ress, Stanley; Gold, Jeffrey A; Condos, Rany; Pine, Richard; Brown, Stuart; Nolan, Anna; Rom, William N; Weiden, Michael D
2008 Jan;88(1):39-51, Tuberculosis (Edinburgh, Scotland)
— id: 74211, year: 2008, vol: 88, page: 39, stat: Journal Article,

Genetic classification of severe early childhood caries by use of subtracted DNA fragments from Streptococcus mutans
Saxena, Deepak; Caufield, Page W; Li, Yihong; Brown, Stuart; Song, Jinmei; Norman, Robert
2008 Sep;46(9):2868-2873, Journal of clinical microbiology
— id: 156784, year: 2008, vol: 46, page: 2868, stat: Journal Article,

Population genomics of the immune evasion (var) genes of Plasmodium falciparum
Barry, Alyssa E; Leliwa-Sytek, Aleksandra; Tavul, Livingston; Imrie, Heather; Migot-Nabias, Florence; Brown, Stuart M; McVean, Gilean A V; Day, Karen P
2007 Mar;3(3):e34-e34, PLoS pathogens
— id: 96299, year: 2007, vol: 3, page: e34, stat: Journal Article,

TBLR1 regulates the expression of nuclear hormone receptor co-repressors
Zhang, Xin-Min; Chang, Qing; Zeng, Lin; Gu, Judy; Brown, Stuart; Basch, Ross S
2006 ;7:31-31, BMC cell biology
— id: 68630, year: 2006, vol: 7, page: 31, stat: Journal Article,

Selection and validation of differentially expressed genes in head and neck cancer
Kuriakose, M A; Chen, W T; He, Z M; Sikora, A G; Zhang, P; Zhang, Z Y; Qiu, W L; Hsu, D F; McMunn-Coffran, C; Brown, S M; Elango, E M; Delacure, M D; Chen, F A
2004 Jun;61(11):1372-1383, Cellular & molecular life sciences: CMLS
— id: 44893, year: 2004, vol: 61, page: 1372, stat: Journal Article,

Aerosolized gamma interferon (IFN-gamma) induces expression of the genes encoding the IFN-gamma-inducible 10-kilodalton protein but not inducible nitric oxide synthase in the lung during tuberculosis
Raju, Bindu; Hoshino, Yoshihiko; Kuwabara, Kenichi; Belitskaya, Ilana; Prabhakar, Savita; Canova, Antony; Gold, Jeffrey A; Condos, Rany; Pine, Richard I; Brown, Stuart; Rom, William N; Weiden, Michael D
2004 Mar;72(3):1275-1283, Infection & immunity
— id: 42241, year: 2004, vol: 72, page: 1275, stat: Journal Article,

Transcriptome of axenic liver stages of Plasmodium yoelii
Wang, Qian; Brown, Stuart; Roos, David S; Nussenzweig, Victor; Bhanot, Purnima
2004 Sep;137(1):161-168, Molecular & biochemical parasitology
— id: 48869, year: 2004, vol: 137, page: 161, stat: Journal Article,

Bioinformatics becomes respectable
Brown, Stuart M
2003 Jun;34(6):1124-1127, Biotechniques
— id: 39192, year: 2003, vol: 34, page: 1124, stat: Journal Article,

Essentials of medical genomics
Brown, Stuart M; Hay, John G; Ostrer, Harry
Hoboken NJ : Wiley-Liss, 2003,
— id: 899, year: 2003, vol: , page: , stat: ,

Infectivity-associated changes in the transcriptional repertoire of the malaria parasite sporozoite stage
Matuschewski, Kai; Ross, Jessica; Brown, Stuart M; Kaiser, Karine; Nussenzweig, Victor; Kappe, Stefan H I
2002 Nov 1;277(44):41948-41953, Journal of biological chemistry
— id: 39415, year: 2002, vol: 277, page: 41948, stat: Journal Article,

Genomics-based identification of self-ligands with T cell receptor-specific biological activity
Santori, Fabio R; Brown, Stuart M; Vukmanovic, Stanislav
2002 Dec;190(4):146-160, Immunological reviews
— id: 34692, year: 2002, vol: 190, page: 146, stat: Journal Article,

Rare, structurally homologous self-peptides promote thymocyte positive selection
Santori, Fabio R; Kieper, William C; Brown, Stuart M; Lu, Yun; Neubert, Thomas A; Johnson, Kenneth L; Naylor, Stephen; Vukmanovic, Stanislav; Hogquist, Kristin A; Jameson, Stephen C
2002 Aug;17(2):131-142, Immunity
— id: 32496, year: 2002, vol: 17, page: 131, stat: Journal Article,

Definitive Identification of Mammalian 5-Hydroxymethyluracil DNA N-Glycosylase Activity as SMUG1
Boorstein RJ; Cummings A Jr; Marenstein DR; Chan MK; Ma Y; Neubert TA; Brown SM; Teebor GW
2001 Nov 9;276(45):41991-41997, Journal of biological chemistry
— id: 23928, year: 2001, vol: 276, page: 41991, stat: Journal Article,

Exploring the transcriptome of the malaria sporozoite stage
Kappe SH; Gardner MJ; Brown SM; Ross J; Matuschewski K; Ribeiro JM; Adams JH; Quackenbush J; Cho J; Carucci DJ; Hoffman SL; Nussenzweig V
2001 Aug 14;98(17):9895-9900, Proceedings of the National Academy of Sciences of the United States of America
— id: 25508, year: 2001, vol: 98, page: 9895, stat: Journal Article,

Cutting Edge: Positive Selection Induced by a Self-Peptide with TCR Antagonist Activity
Santori FR; Brown SM; Lu Y; Neubert TA; Vukmanovic S
2001 Dec 1;167(11):6092-6095, Journal of immunology
— id: 23925, year: 2001, vol: 167, page: 6092, stat: Journal Article,

Squamous cell carcinoma of the nail bed: is finger predominance another clue to etiology? A report of 5 cases
Zabawski, E J Jr; Washak, R V; Cohen, J B; Cockerell, C J; Brown, S M
2001 Jan;67(1):59-64, Cutis
— id: 123719, year: 2001, vol: 67, page: 59, stat: Journal Article,

Get your bioinformatics on the Web!
Brown SM
2000 Feb;28(2):244-246, Biotechniques
— id: 11829, year: 2000, vol: 28, page: 244, stat: Journal Article,

Be alert: free sequence alerting services
Brown, S M
2000 Dec;29(6):1210-1212, Biotechniques
— id: 111700, year: 2000, vol: 29, page: 1210, stat: Journal Article,

Dealing with Genome Project data
Brown SM
1999 ;26(2):266-26?, Biotechniques
— id: 8125, year: 1999, vol: 26, page: 266, stat: Journal Article,

Phylogenetics on the Web
Brown SM
1999 Dec;27(6):1146-1148, Biotechniques
— id: 11869, year: 1999, vol: 27, page: 1146, stat: Journal Article,

Snapping up SNPs
Brown SM
1999 Jun;26(6):'437'-'445', Biotechniques
— id: 6141, year: 1999, vol: 26, page: '437', stat: Journal Article,

Analyzing protein families and domains on the Web
Brown SM
1998 Oct;25(4):596-598, Biotechniques
— id: 7307, year: 1998, vol: 25, page: 596, stat: Journal Article,

Sequence similarity searches on the World Wide Web
Brown SM
1998 Feb;24(2):248-250, Biotechniques
— id: 7514, year: 1998, vol: 24, page: 248, stat: Journal Article,

Advanced similarity searches on the Web: Gapped BLAST, PSI-BLAST, FASTA 3.0 and INCA
Brown, SM
1998 AUG ;25(2):214-+, Biotechniques
— id: 53395, year: 1998, vol: 25, page: 214, stat: Journal Article,

Sequence alignment on the Web
Brown, SM
1998 JUN ;24(6):944-+, Biotechniques
— id: 53436, year: 1998, vol: 24, page: 944, stat: Journal Article,

Biologists and mathematicians: bridging the chasm
Brown SM
1997 May;13(5):173-173, Trends in genetics
— id: 7126, year: 1997, vol: 13, page: 173, stat: Journal Article,