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Results: 1 to 20 of 116

1.

The DAVID Gene Functional Classification Tool: a novel biological module-centric algorithm to functionally analyze large gene lists.

Huang da W, Sherman BT, Tan Q, Collins JR, Alvord WG, Roayaei J, Stephens R, Baseler MW, Lane HC, Lempicki RA.

Genome Biol. 2007;8(9):R183.

PMID:
17784955
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

DAVID Bioinformatics Resources: expanded annotation database and novel algorithms to better extract biology from large gene lists.

Huang da W, Sherman BT, Tan Q, Kir J, Liu D, Bryant D, Guo Y, Stephens R, Baseler MW, Lane HC, Lempicki RA.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W169-75. Epub 2007 Jun 18.

PMID:
17576678
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Towards precise classification of cancers based on robust gene functional expression profiles.

Guo Z, Zhang T, Li X, Wang Q, Xu J, Yu H, Zhu J, Wang H, Wang C, Topol EJ, Wang Q, Rao S.

BMC Bioinformatics. 2005 Mar 17;6:58.

PMID:
15774002
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

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.

BMC Bioinformatics. 2007 Nov 2;8:426.

PMID:
17980028
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Extracting biological meaning from large gene lists with DAVID.

Huang da W, Sherman BT, Zheng X, Yang J, Imamichi T, Stephens R, Lempicki RA.

Curr Protoc Bioinformatics. 2009 Sep;Chapter 13:Unit 13.11. doi: 10.1002/0471250953.bi1311s27.

PMID:
19728287
[PubMed - indexed for MEDLINE]
6.

MILANO--custom annotation of microarray results using automatic literature searches.

Rubinstein R, Simon I.

BMC Bioinformatics. 2005 Jan 20;6:12.

PMID:
15661078
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Seeking unique and common biological themes in multiple gene lists or datasets: pathway pattern extraction pipeline for pathway-level comparative analysis.

Yi M, Mudunuri U, Che A, Stephens RM.

BMC Bioinformatics. 2009 Jun 29;10:200. doi: 10.1186/1471-2105-10-200.

PMID:
19563622
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Mining coherent dense subgraphs across massive biological networks for functional discovery.

Hu H, Yan X, Huang Y, Han J, Zhou XJ.

Bioinformatics. 2005 Jun;21 Suppl 1:i213-21.

PMID:
15961460
[PubMed - indexed for MEDLINE]
Free Article
9.

DEFOG: discrete enrichment of functionally organized genes.

Wittkop T, Berman AE, Fleisch KM, Mooney SD.

Integr Biol (Camb). 2012 Jul;4(7):795-804. doi: 10.1039/c2ib00136e. Epub 2012 Jun 18.

PMID:
22706384
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources.

Huang da W, Sherman BT, Lempicki RA.

Nat Protoc. 2009;4(1):44-57. doi: 10.1038/nprot.2008.211.

PMID:
19131956
[PubMed - indexed for MEDLINE]
11.

Algal Functional Annotation Tool: a web-based analysis suite to functionally interpret large gene lists using integrated annotation and expression data.

Lopez D, Casero D, Cokus SJ, Merchant SS, Pellegrini M.

BMC Bioinformatics. 2011 Jul 12;12:282. doi: 10.1186/1471-2105-12-282.

PMID:
21749710
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

GFINDer: Genome Function INtegrated Discoverer through dynamic annotation, statistical analysis, and mining.

Masseroli M, Martucci D, Pinciroli F.

Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W293-300.

PMID:
15215397
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Clustering microarray gene expression data using weighted Chinese restaurant process.

Qin ZS.

Bioinformatics. 2006 Aug 15;22(16):1988-97. Epub 2006 Jun 9.

PMID:
16766561
[PubMed - indexed for MEDLINE]
Free Article
14.

g:Profiler--a web-based toolset for functional profiling of gene lists from large-scale experiments.

Reimand J, Kull M, Peterson H, Hansen J, Vilo J.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W193-200. Epub 2007 May 3.

PMID:
17478515
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

GIFtS: annotation landscape analysis with GeneCards.

Harel A, Inger A, Stelzer G, Strichman-Almashanu L, Dalah I, Safran M, Lancet D.

BMC Bioinformatics. 2009 Oct 23;10:348. doi: 10.1186/1471-2105-10-348.

PMID:
19852797
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

PubMatrix: a tool for multiplex literature mining.

Becker KG, Hosack DA, Dennis G Jr, Lempicki RA, Bright TJ, Cheadle C, Engel J.

BMC Bioinformatics. 2003 Dec 10;4:61.

PMID:
14667255
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

An effective method for network module extraction from microarray data.

Mahanta P, Ahmed HA, Bhattacharyya DK, Kalita JK.

BMC Bioinformatics. 2012;13 Suppl 13:S4. doi: 10.1186/1471-2105-13-S13-S4. Epub 2012 Aug 24.

PMID:
23320896
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Gene set internal coherence in the context of functional profiling.

Montaner D, Minguez P, Al-Shahrour F, Dopazo J.

BMC Genomics. 2009 Apr 27;10:197. doi: 10.1186/1471-2164-10-197.

PMID:
19397819
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

GOrilla: a tool for discovery and visualization of enriched GO terms in ranked gene lists.

Eden E, Navon R, Steinfeld I, Lipson D, Yakhini Z.

BMC Bioinformatics. 2009 Feb 3;10:48. doi: 10.1186/1471-2105-10-48.

PMID:
19192299
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

WGCNA: an R package for weighted correlation network analysis.

Langfelder P, Horvath S.

BMC Bioinformatics. 2008 Dec 29;9:559. doi: 10.1186/1471-2105-9-559.

PMID:
19114008
[PubMed - indexed for MEDLINE]
Free PMC Article

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