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Gene expression profiles in hepatitis C virus (HCV) and HIV coinfection: class prediction analyses before treatment predict the outcome of anti-HCV therapy among HIV-coinfected persons.
Lempicki RA, Polis MA, Yang J, McLaughlin M, Koratich C, Huang DW, Fullmer B, Wu L, Rehm CA, Masur H, Lane HC, Sherman KE, Fauci AS, Kottilil S. Lempicki RA, et al. J Infect Dis. 2006 Apr 15;193(8):1172-7. doi: 10.1086/501365. Epub 2006 Mar 13. J Infect Dis. 2006. PMID: 16544259
Transcriptomic response to differentiation induction.
Patton GW, Stephens R, Sidorov IA, Xiao X, Lempicki RA, Dimitrov DS, Shoemaker RH, Tudor G. Patton GW, et al. BMC Bioinformatics. 2006 Feb 17;7:81. doi: 10.1186/1471-2105-7-81. BMC Bioinformatics. 2006. PMID: 16503971 Free PMC article.
Distinguishing highly similar gene isoforms with a clustering-based bioinformatics analysis of PacBio single-molecule long reads.
Liang M, Raley C, Zheng X, Kutty G, Gogineni E, Sherman BT, Sun Q, Chen X, Skelly T, Jones K, Stephens R, Zhou B, Lau W, Johnson C, Imamichi T, Jiang M, Dewar R, Lempicki RA, Tran B, Kovacs JA, Huang DW. Liang M, et al. Among authors: lempicki ra. BioData Min. 2016 Apr 5;9:13. doi: 10.1186/s13040-016-0090-8. eCollection 2016. BioData Min. 2016. PMID: 27051465 Free PMC article.
DAVID-WS: a stateful web service to facilitate gene/protein list analysis.
Jiao X, Sherman BT, Huang da W, Stephens R, Baseler MW, Lane HC, Lempicki RA. Jiao X, et al. Bioinformatics. 2012 Jul 1;28(13):1805-6. doi: 10.1093/bioinformatics/bts251. Epub 2012 Apr 27. Bioinformatics. 2012. PMID: 22543366 Free PMC article.
Extracting biological meaning from large gene lists with DAVID.
Huang da W, Sherman BT, Zheng X, Yang J, Imamichi T, Stephens R, Lempicki RA. Huang da W, et al. Curr Protoc Bioinformatics. 2009 Sep;Chapter 13:Unit 13.11. doi: 10.1002/0471250953.bi1311s27. Curr Protoc Bioinformatics. 2009. PMID: 19728287
DAVID Knowledgebase: a gene-centered database integrating heterogeneous gene annotation resources to facilitate high-throughput gene functional analysis.
Sherman BT, Huang da W, Tan Q, Guo Y, Bour S, Liu D, Stephens R, Baseler MW, Lane HC, Lempicki RA. Sherman BT, et al. BMC Bioinformatics. 2007 Nov 2;8:426. doi: 10.1186/1471-2105-8-426. BMC Bioinformatics. 2007. PMID: 17980028 Free PMC article.
The DAVID Gene Functional Classification Tool: a novel biological module-centric algorithm to functionally analyze large gene lists.
Huang DW, Sherman BT, Tan Q, Collins JR, Alvord WG, Roayaei J, Stephens R, Baseler MW, Lane HC, Lempicki RA. Huang DW, et al. Genome Biol. 2007;8(9):R183. doi: 10.1186/gb-2007-8-9-r183. Genome Biol. 2007. PMID: 17784955 Free PMC article.
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