Alexander V Alekseyenko

Biosketch / Results /

Alexander V Alekseyenko, D.Phil.

Assistant Professor;
Department of Medicine (Clin Pharm Div)

Contact Info

Address
227 E. 30th Street
Floor 7 Room 7-40
Translational Research Building
New York, NY 10016

Alexander.Alekseyenko@nyumc.org

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Education

2002-2003 — University of California Los Angeles, Graduate Education
2003-2008 — University of California Los Angeles, Graduate Education
2008 — European Bioinformatics Institute, PostDoctoral Training
2009 — Stanford Universtiy, PostDoctoral Training

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All data from NYU Health Sciences Library Faculty Bibliography — -

Contact:
http://hsl.med.nyu.edu/faculty-bibliography-search

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,

Altering the Intestinal Microbiota during a Critical Developmental Window Has Lasting Metabolic Consequences
Cox, Laura M; Yamanishi, Shingo; Sohn, Jiho; Alekseyenko, Alexander V; Leung, Jacqueline M; Cho, Ilseung; Kim, Sungheon G; Li, Huilin; Gao, Zhan; Mahana, Douglas; Zarate Rodriguez, Jorge G; Rogers, Arlin B; Robine, Nicolas; Loke, P'ng; Blaser, Martin J
2014 Aug;158(4):705-721, Cell
— id: 1132022, year: 2014, vol: 158, page: 705, stat: Journal Article,

The cutaneous microbiota in atopic dermatitis changes with topical corticosteroid and bleach bath treatment
Gonzalez, M. E.; Schaffer, J. V.; Orlow, S. J.; Gao, Z.; Li, H.; Alekseyenko, A. V.; Blaser, M. J.
2014 MAY;134 1 1:S109-S109, Journal of investigative dermatology
— id: 997122, year: 2014, vol: 134 1 1, page: S109, stat: Journal Article,

Correction: Enrichment of lung microbiome with supraglottic taxa is associated with increased pulmonary inflammation
Segal, Leopoldo N; Alekseyenko, Alexander V; Clemente, Jose C; Kulkarni, Rohan; Wu, Benjamin; Gao, Zhan; Chen, Hao; Berger, Kenneth I; Goldring, Roberta M; Rom, William N; Blaser, Martin J; Weiden, Michael D
2014 ;2:21-21, Microbiome
— id: 1065932, year: 2014, vol: 2, page: 21, stat: Journal Article,

Enrichment of lung microbiome with supraglotic microbes is associated with increased pulmonary inflammation
Segal, Leopoldo N; Alekseyenko, Alexander; Clemente, Jose C; Berger, Kenneth; Goldring, Roberta; Rom, William N; Blaser, Martin J; Weiden, Michael D
2014 Jan;11 Suppl 1:S71-S71 S71, Annals of the American Thoracic Society
— id: 753802, year: 2014, vol: 11 Suppl 1, page: S71, stat: Journal Article,

Community differentiation of the cutaneous microbiota in psoriasis
Alekseyenko, Alexander V; Perez-Perez, Guillermo I; De Souza, Aieska; Strober, Bruce; Gao, Zhan; Bihan, Monika; Li, Kelvin; Methe, Barbara A; Blaser, Martin J
2013 ;1(1):31-31, Microbiome
— id: 760032, year: 2013, vol: 1, page: 31, stat: Journal Article,

Phylogenetic analysis of glucosyltransferases and implications for the coevolution of mutans streptococci with their Mammalian hosts
Argimon, Silvia; Alekseyenko, Alexander V; Desalle, Rob; Caufield, Page W
2013 ;8(2):e56305-e56305 e56305, PLoS one
— id: 231392, year: 2013, vol: 8, page: e56305, stat: Journal Article,

Strategic applications of gene expression: from drug discovery/development to bedside
Bai, Jane P F; Alekseyenko, Alexander V; Statnikov, Alexander; Wang, I-Ming; Wong, Peggy H
2013 Apr;15(2):427-437, AAPS journal
— id: 470392, year: 2013, vol: 15, page: 427, stat: Journal Article,

The nonfermentable dietary fiber hydroxypropyl methylcellulose modulates intestinal microbiota
Cox, Laura M; Cho, Ilseung; Young, Scott A; Anderson, W H Kerr; Waters, Bartholomew J; Hung, Shao-Ching; Gao, Zhan; Mahana, Douglas; Bihan, Monika; Alekseyenko, Alexander V; Methe, Barbara A; Blaser, Martin J
2013 Feb;27(2):692-702, FASEB journal
— id: 242182, year: 2013, vol: 27, page: 692, stat: Journal Article,

Pilot study of oral microbiome and risk of pancreatic cancer
Lin, I-Hsin; Wu, Jing; Cohen, Steven M.; Chen, Calvin; Bryk, Darren; Marr, Mollie; Melis, Marcovalerio; Newman, Elliot; Pachter, H. Leon; Alekseyenko, Alexander V.; Hayes, Richard B.; Ahn, Jiyoung
2013 APR 15;73(8 1 1):-, Cancer research
— id: 853292, year: 2013, vol: 73, page: , stat: Journal Article,

Quantitation and composition of cutaneous microbiota in diabetic and nondiabetic men
Redel, Henry; Gao, Zhan; Li, Huilin; Alekseyenko, Alexander V; Zhou, Yanjiao; Perez-Perez, Guillermo I; Weinstock, George; Sodergren, Erica; Blaser, Martin J
2013 Apr;207(7):1105-1114, Journal of infectious diseases
— id: 264262, year: 2013, vol: 207, page: 1105, stat: Journal Article,

Enrichment of lung microbiome with supraglottic taxa is associated with increased pulmonary inflammation
Segal, Leopoldo N; Alekseyenko, Alexander V; Clemente, Jose C; Kulkarni, Rohan; Wu, Benjamin; Chen, Hao; Berger, Kenneth I; Goldring, Roberta M; Rom, William N; Blaser, Martin J; Weiden, Michael D
2013 ;1(1):19-19, Microbiome
— id: 760012, year: 2013, vol: 1, page: 19, stat: Journal Article,

Comparative genomics of oral isolates of Streptococcus mutans by in silico genome subtraction does not reveal accessory DNA associated with severe early childhood caries
Silvia, Argimon; Kranti, Konganti; Hao, Chen; Alekseyenko, Alexander V; Stuart, Brown; Caufield, Page W
2013 Nov;:269-278, Infection, genetics & evolution
— id: 666462, year: 2013, vol: , page: 269, stat: Journal Article,

Microbiomic signatures of psoriasis: feasibility and methodology comparison
Statnikov, Alexander; Alekseyenko, Alexander V; Li, Zhiguo; Henaff, Mikael; Perez-Perez, Guillermo I; Blaser, Martin J; Aliferis, Constantin F
2013 Sep;3:2620-2620, Scientific reports
— id: 529142, year: 2013, vol: 3, page: 2620, stat: Journal Article,

A comprehensive evaluation of multicategory classification methods for microbiomic data
Statnikov, Alexander; Henaff, Mikael; Narendra, Varun; Konganti, Kranti; Li, Zhiguo; Yang, Liying; Pei, Zhiheng; Blaser, Martin J; Aliferis, Constantin F; Alekseyenko, Alexander V
2013 ;1(1):11-11, Microbiome
— id: 764032, year: 2013, vol: 1, page: 11, stat: Journal Article,

Improving the accuracy of demographic and molecular clock model comparison while accommodating phylogenetic uncertainty
Baele, Guy; Lemey, Philippe; Bedford, Trevor; Rambaut, Andrew; Suchard, Marc A; Alekseyenko, Alexander V
2012 Sep;29(9):2157-2167, Molecular biology & evolution
— id: 177226, year: 2012, vol: 29, page: 2157, stat: Journal Article,

Mapping the origins and expansion of the Indo-European language family
Bouckaert, Remco; Lemey, Philippe; Dunn, Michael; Greenhill, Simon J; Alekseyenko, Alexander V; Drummond, Alexei J; Gray, Russell D; Suchard, Marc A; Atkinson, Quentin D
2012 Aug;337(6097):957-960, Science
— id: 177236, year: 2012, vol: 337, page: 957, stat: Journal Article,

Antibiotics in early life alter the murine colonic microbiome and adiposity
Cho, Ilseung; Yamanishi, Shingo; Cox, Laura; Methe, Barbara A; Zavadil, Jiri; Li, Kelvin; Gao, Zhan; Mahana, Douglas; Raju, Kartik; Teitler, Isabel; Li, Huilin; Alekseyenko, Alexander V; Blaser, Martin J
2012 Aug;488(7413):621-626, Nature
— id: 177150, year: 2012, vol: 488, page: 621, stat: Journal Article,

Diversity of 5S rRNA genes within individual prokaryotic genomes
Pei, Anna; Li, Hongru; Oberdorf, William E.; Alekseyenko, Alexander V.; Parsons, Tamasha; Yang, Liying; Gerz, Erika A.; Lee, Peng; Xiang, Charlie; Nossa, Carlos W.; Pei, Zhiheng
2012 OCT;335(1):11-18, FEMS microbiology letters
— id: 180171, year: 2012, vol: 335, page: 11, stat: Journal Article,

Diversity of 5S rRNA genes within individual prokaryotic genomes
Pei, Anna; Li, Hongru; Oberdorf, William E; Alekseyenko, Alexander V; Parsons, Tamasha; Yang, Liying; Gerz, Erika A; Lee, Peng; Xiang, Charlie; Nossa, Carlos W; Pei, Zhiheng
2012 Jul;:11-18, FEMS microbiology letters
— id: 175922, year: 2012, vol: , page: 11, stat: Journal Article,

Causal graph-based analysis of genome-wide association data in rheumatoid arthritis
Alekseyenko, Alexander V; Lytkin, Nikita I; Ai, Jizhou; Ding, Bo; Padyukov, Leonid; Aliferis, Constantin F; Statnikov, Alexander
2011 ;6:25-25, Biology direct
— id: 134450, year: 2011, vol: 6, page: 25, 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,

The RAG2 C terminus suppresses genomic instability and lymphomagenesis
Deriano, Ludovic; Chaumeil, Julie; Coussens, Marc; Multani, Asha; Chou, YiFan; Alekseyenko, Alexander V; Chang, Sandy; Skok, Jane A; Roth, David B
2011 Mar 3;471(7336):119-123, Nature
— id: 128877, year: 2011, vol: 471, page: 119, stat: Journal Article,

Simrank: Rapid and sensitive general-purpose k-mer search tool
DeSantis, Todd Z; Keller, Keith; Karaoz, Ulas; Alekseyenko, Alexander V; Singh, Navjeet N S; Brodie, Eoin L; Pei, Zhiheng; Andersen, Gary L; Larsen, Niels
2011 ;11:11-11, BMC ecology
— id: 177250, year: 2011, vol: 11, page: 11, stat: Journal Article,

Testing spatiotemporal hypothesis of bacterial evolution using methicillin-resistant Staphylococcus aureus ST239 genome-wide data within a bayesian framework
Gray, Rebecca R; Tatem, Andrew J; Johnson, Judith A; Alekseyenko, Alexander V; Pybus, Oliver G; Suchard, Marc A; Salemi, Marco
2011 May;28(5):1593-1603, Molecular biology & evolution
— id: 134253, year: 2011, vol: 28, page: 1593, stat: Journal Article,

Visualization and statistical comparisons of microbial communities using R packages on phylochip data
Holmes, Susan; Alekseyenko, Alexander; Timme, Alden; Nelson, Tyrrell; Pasricha, Pankaj Jay; Spormann, Alfred
2011 ;:142-153, Pacific symposium on biocomputing
— id: 120830, year: 2011, vol: , page: 142, stat: Journal Article,

PhyloChip microarray analysis reveals altered gastrointestinal microbial communities in a rat model of colonic hypersensitivity
Nelson TA; Holmes S; Alekseyenko AV; Shenoy M; Desantis T; Wu CH; Andersen GL; Winston J; Sonnenburg J; Pasricha PJ; Spormann A
2011 Feb;23(2):27-41, Neurogastroenterology & motility
— id: 120829, year: 2011, vol: 23, page: 27, stat: Journal Article,

Exploring the future of bioinformatics data sharing and mining with Pygr and Worldbase
Lee CJ; Alekseyenko AV; Brown CT
SciPy 2009 : proceedings of the 8th Python in Science Conference, Pasadena, CA, August 18-23, 2009 [S.l. : s.n., 2009],
— id: 5559, year: 2009, vol: , page: 62, stat: Chapter,

Accurate stochastic simulation via the step anticipation tau-leaping (SAL) algorithm
Sehl, Mary; Alekseyenko, Alexander V; Lange, Kenneth L
2009 Sep;16(9):1195-1208, Journal of computational biology
— id: 104108, year: 2009, vol: 16, page: 1195, stat: Journal Article,

Wagner and Dollo: a stochastic duet by composing two parsimonious solos
Alekseyenko, Alexander V; Lee, Christopher J; Suchard, Marc A
2008 Oct;57(5):772-784, Systematic biology
— id: 104067, year: 2008, vol: 57, page: 772, stat: Journal Article,

Global analysis of exon creation versus loss and the role of alternative splicing in 17 vertebrate genomes
Alekseyenko, Alexander V; Kim, Namshin; Lee, Christopher J
2007 May;13(5):661-670, RNA
— id: 104014, year: 2007, vol: 13, page: 661, stat: Journal Article,

Nested Containment List (NCList): a new algorithm for accelerating interval query of genome alignment and interval databases
Alekseyenko, Alexander V; Lee, Christopher J
2007 Jun 1;23(11):1386-1393, Bioinformatics
— id: 104008, year: 2007, vol: 23, page: 1386, stat: Journal Article,

The ASAP II database: analysis and comparative genomics of alternative splicing in 15 animal species
Kim, Namshin; Alekseyenko, Alexander V; Roy, Meenakshi; Lee, Christopher
2007 Jan;35(Database issue):D93-D98, Nucleic acids research
— id: 104000, year: 2007, vol: 35, page: D93, stat: Journal Article,

Evidence for a subpopulation of conserved alternative splicing events under selection pressure for protein reading frame preservation
Resch, Alissa; Xing, Yi; Alekseyenko, Alexander; Modrek, Barmak; Lee, Christopher
2004 ;32(4):1261-1269, Nucleic acids research
— id: 120828, year: 2004, vol: 32, page: 1261, stat: Journal Article,