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Fast Gene Ontology based clustering for microarray experiments.

Ovaska K, Laakso M, Hautaniemi S.

BioData Min. 2008 Nov 21;1(1):11.PMID: 19025591 [PubMed - in process]Related articlesFree article

DynGO: a tool for visualizing and mining of Gene Ontology and its associations.

Liu H, Hu ZZ, Wu CH.

BMC Bioinformatics. 2005 Aug 9;6:201.PMID: 16091147 [PubMed - indexed for MEDLINE]Related articlesFree article

A relation based measure of semantic similarity for Gene Ontology annotations.

Sheehan B, Quigley A, Gaudin B, Dobson S.

BMC Bioinformatics. 2008 Nov 4;9:468.PMID: 18983678 [PubMed - indexed for MEDLINE]Related articlesFree article

Interpreting experimental results using gene ontologies.

Beissbarth T.

Methods Enzymol. 2006;411:340-52. Review.PMID: 16939799 [PubMed - indexed for MEDLINE]Related articles

Discovering gene annotations in biomedical text databases.

Cakmak A, Ozsoyoglu G.

BMC Bioinformatics. 2008 Mar 6;9:143.PMID: 18325104 [PubMed - indexed for MEDLINE]Related articlesFree article

GOFFA: gene ontology for functional analysis--a FDA gene ontology tool for analysis of genomic and proteomic data.

Sun H, Fang H, Chen T, Perkins R, Tong W.

BMC Bioinformatics. 2006 Sep 6;7 Suppl 2:S23.PMID: 17118145 [PubMed - in process]Related articlesFree article

Onto-CC: a web server for identifying Gene Ontology conceptual clusters.

Romero-Zaliz R, Del Val C, Cobb JP, Zwir I.

Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W352-7. Epub 2008 Jun 10.PMID: 18544607 [PubMed - indexed for MEDLINE]Related articlesFree article

Seeing the forest for the trees: using the Gene Ontology to restructure hierarchical clustering.

Dotan-Cohen D, Kasif S, Melkman AA.

Bioinformatics. 2009 Jul 15;25(14):1789-95. Epub 2009 Jun 3.PMID: 19497934 [PubMed - indexed for MEDLINE]Related articlesFree article

GOSim--an R-package for computation of information theoretic GO similarities between terms and gene products.

Fröhlich H, Speer N, Poustka A, Beissbarth T.

BMC Bioinformatics. 2007 May 22;8:166.PMID: 17519018 [PubMed - indexed for MEDLINE]Related articlesFree article

Gene Ontology analysis in multiple gene clusters under multiple hypothesis testing framework.

Zhong S, Xie D.

Artif Intell Med. 2007 Oct;41(2):105-15.PMID: 17913480 [PubMed - indexed for MEDLINE]Related articles

A transversal approach to predict gene product networks from ontology-based similarity.

Chabalier J, Mosser J, Burgun A.

BMC Bioinformatics. 2007 Jul 2;8:235.PMID: 17605807 [PubMed - indexed for MEDLINE]Related articlesFree article

Gene Ontology annotation of the rice blast fungus, Magnaporthe oryzae.

Meng S, Brown DE, Ebbole DJ, Torto-Alalibo T, Oh YY, Deng J, Mitchell TK, Dean RA.

BMC Microbiol. 2009 Feb 19;9 Suppl 1:S8. Review.PMID: 19278556 [PubMed - indexed for MEDLINE]Related articlesFree article

Additional gene ontology structure for improved biological reasoning.

Myhre S, Tveit H, Mollestad T, Laegreid A.

Bioinformatics. 2006 Aug 15;22(16):2020-7. Epub 2006 Jun 20.PMID: 16787968 [PubMed - indexed for MEDLINE]Related articlesFree article

From disease ontology to disease-ontology lite: statistical methods to adapt a general-purpose ontology for the test of gene-ontology associations.

Du P, Feng G, Flatow J, Song J, Holko M, Kibbe WA, Lin SM.

Bioinformatics. 2009 Jun 15;25(12):i63-8.PMID: 19478018 [PubMed - indexed for MEDLINE]Related articlesFree article

Improving detection of differentially expressed gene sets by applying cluster enrichment analysis to Gene Ontology.

Xu T, Gu J, Zhou Y, Du L.

BMC Bioinformatics. 2009 Aug 5;10:240.PMID: 19653916 [PubMed - indexed for MEDLINE]Related articlesFree article

Clustering approaches to identifying gene expression patterns from DNA microarray data.

Do JH, Choi DK.

Mol Cells. 2008 Apr 30;25(2):279-88. Epub 2008 Mar 31. Review.PMID: 18414008 [PubMed - indexed for MEDLINE]Related articles

Dynamically weighted clustering with noise set.

Shen Y, Sun W, Li KC.

Bioinformatics. 2010 Feb 1;26(3):341-7. Epub 2009 Dec 9.PMID: 20007256 [PubMed - in process]Related articlesFree article

Incorporation of gene ontology annotations to enhance microarray data analysis.

Ochs MF, Peterson AJ, Kossenkov A, Bidaut G.

Methods Mol Biol. 2007;377:243-54. Review.PMID: 17634621 [PubMed - indexed for MEDLINE]Related articles

Improved detection of overrepresentation of Gene-Ontology annotations with parent child analysis.

Grossmann S, Bauer S, Robinson PN, Vingron M.

Bioinformatics. 2007 Nov 15;23(22):3024-31. Epub 2007 Sep 11.PMID: 17848398 [PubMed - indexed for MEDLINE]Related articlesFree article

Cluster analysis of protein array results via similarity of Gene Ontology annotation.

Wolting C, McGlade CJ, Tritchler D.

BMC Bioinformatics. 2006 Jul 12;7:338.PMID: 16836750 [PubMed - indexed for MEDLINE]Related articlesFree article