PubMed

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]Related articlesFree article

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]Related articlesFree article

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]Related articlesFree article

CoPub Mapper: mining MEDLINE based on search term co-publication.

Alako BT, Veldhoven A, van Baal S, Jelier R, Verhoeven S, Rullmann T, Polman J, Jenster G.

BMC Bioinformatics. 2005 Mar 11;6:51.PMID: 15760478 [PubMed - indexed for MEDLINE]Related articlesFree article

Cross-platform comparison and visualisation of gene expression data using co-inertia analysis.

Culhane AC, Perrière G, Higgins DG.

BMC Bioinformatics. 2003 Nov 21;4:59.PMID: 14633289 [PubMed - indexed for MEDLINE]Related articlesFree article

Mining microarray expression data by literature profiling.

Chaussabel D, Sher A.

Genome Biol. 2002 Sep 13;3(10):RESEARCH0055. Epub 2002 Sep 13.PMID: 12372143 [PubMed - indexed for MEDLINE]Related articlesFree article

GOTree Machine (GOTM): a web-based platform for interpreting sets of interesting genes using Gene Ontology hierarchies.

Zhang B, Schmoyer D, Kirov S, Snoddy J.

BMC Bioinformatics. 2004 Feb 18;5:16.PMID: 14975175 [PubMed - indexed for MEDLINE]Related articlesFree article

Textpresso: an ontology-based information retrieval and extraction system for biological literature.

Müller HM, Kenny EE, Sternberg PW.

PLoS Biol. 2004 Nov;2(11):e309. Epub 2004 Sep 21.PMID: 15383839 [PubMed - indexed for MEDLINE]Related articlesFree article

PathMAPA: a tool for displaying gene expression and performing statistical tests on metabolic pathways at multiple levels for Arabidopsis.

Pan D, Sun N, Cheung KH, Guan Z, Ma L, Holford M, Deng X, Zhao H.

BMC Bioinformatics. 2003 Nov 7;4:56.PMID: 14604444 [PubMed - indexed for MEDLINE]Related articlesFree article

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]Related articlesFree article

Tumor classification and marker gene prediction by feature selection and fuzzy c-means clustering using microarray data.

Wang J, Bø TH, Jonassen I, Myklebost O, Hovig E.

BMC Bioinformatics. 2003 Dec 2;4:60.PMID: 14651757 [PubMed - indexed for MEDLINE]Related articlesFree article

Mining published lists of cancer related microarray experiments: identification of a gene expression signature having a critical role in cell-cycle control.

Finocchiaro G, Mancuso F, Muller H.

BMC Bioinformatics. 2005 Dec 1;6 Suppl 4:S14.PMID: 16351740 [PubMed - indexed for MEDLINE]Related articlesFree article

B.E.A.R. GeneInfo: a tool for identifying gene-related biomedical publications through user modifiable queries.

Zhou G, Wen X, Liu H, Schlicht MJ, Hessner MJ, Tonellato PJ, Datta MW.

BMC Bioinformatics. 2004 Apr 29;5:46.PMID: 15117422 [PubMed - indexed for MEDLINE]Related articlesFree article

Identifying biological themes within lists of genes with EASE.

Hosack DA, Dennis G Jr, Sherman BT, Lane HC, Lempicki RA.

Genome Biol. 2003;4(10):R70. Epub 2003 Sep 11.PMID: 14519205 [PubMed - indexed for MEDLINE]Related articlesFree article

PSE: a tool for browsing a large amount of MEDLINE/PubMed abstracts with gene names and common words as the keywords.

Yoneya T.

BMC Bioinformatics. 2005 Dec 10;6:295.PMID: 16336692 [PubMed - indexed for MEDLINE]Related articlesFree article

GECKO: a complete large-scale gene expression analysis platform.

Theilhaber J, Ulyanov A, Malanthara A, Cole J, Xu D, Nahf R, Heuer M, Brockel C, Bushnell S.

BMC Bioinformatics. 2004 Dec 10;5:195.PMID: 15588317 [PubMed - indexed for MEDLINE]Related articlesFree article

Development of gene ontology tool for biological interpretation of genomic and proteomic data.

Feng W, Wang G, Zeeberg BR, Guo K, Fojo AT, Kane DW, Reinhold WC, Lababidi S, Weinstein JN, Wang MD.

AMIA Annu Symp Proc. 2003:839.PMID: 14728344 [PubMed - indexed for MEDLINE]Related articlesFree article

MADIBA: a web server toolkit for biological interpretation of Plasmodium and plant gene clusters.

Law PJ, Claudel-Renard C, Joubert F, Louw AI, Berger DK.

BMC Genomics. 2008 Feb 28;9:105.PMID: 18307768 [PubMed - indexed for MEDLINE]Related articlesFree article

WholePathwayScope: a comprehensive pathway-based analysis tool for high-throughput data.

Yi M, Horton JD, Cohen JC, Hobbs HH, Stephens RM.

BMC Bioinformatics. 2006 Jan 19;7:30.PMID: 16423281 [PubMed - indexed for MEDLINE]Related articlesFree article

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.PMID: 19192299 [PubMed - indexed for MEDLINE]Related articlesFree article