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Metrics for GO based protein semantic similarity: a systematic evaluation.

Pesquita C, Faria D, Bastos H, Ferreira AE, Falcão AO, Couto FM.

BMC Bioinformatics. 2008 Apr 29;9 Suppl 5:S4.PMID: 18460186 [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

Correlation between gene expression and GO semantic similarity.

Sevilla JL, Segura V, Podhorski A, Guruceaga E, Mato JM, Martínez-Cruz LA, Corrales FJ, Rubio A.

IEEE/ACM Trans Comput Biol Bioinform. 2005 Oct-Dec;2(4):330-8.PMID: 17044170 [PubMed - indexed for MEDLINE]Related articles

A new measure for functional similarity of gene products based on Gene Ontology.

Schlicker A, Domingues FS, Rahnenführer J, Lengauer T.

BMC Bioinformatics. 2006 Jun 15;7:302.PMID: 16776819 [PubMed - indexed for MEDLINE]Related articlesFree article

Evaluation of GO-based functional similarity measures using S. cerevisiae protein interaction and expression profile data.

Xu T, Du L, Zhou Y.

BMC Bioinformatics. 2008 Nov 6;9:472.PMID: 18986551 [PubMed - indexed for MEDLINE]Related articlesFree article

Information theory applied to the sparse gene ontology annotation network to predict novel gene function.

Tao Y, Sam L, Li J, Friedman C, Lussier YA.

Bioinformatics. 2007 Jul 1;23(13):i529-38.PMID: 17646340 [PubMed - indexed for MEDLINE]Related articlesFree article

Gene Ontology term overlap as a measure of gene functional similarity.

Mistry M, Pavlidis P.

BMC Bioinformatics. 2008 Aug 4;9:327.PMID: 18680592 [PubMed - indexed for MEDLINE]Related articlesFree article

Fuzzy measures on the Gene Ontology for gene product similarity.

Popescu M, Keller JM, Mitchell JA.

IEEE/ACM Trans Comput Biol Bioinform. 2006 Jul-Sep;3(3):263-74.PMID: 17048464 [PubMed - indexed for MEDLINE]Related articles

How to decide which are the most pertinent overly-represented features during gene set enrichment analysis.

Barriot R, Sherman DJ, Dutour I.

BMC Bioinformatics. 2007 Sep 11;8:332.PMID: 17848190 [PubMed - indexed for MEDLINE]Related articlesFree article

Incorporating functional inter-relationships into protein function prediction algorithms.

Pandey G, Myers CL, Kumar V.

BMC Bioinformatics. 2009 May 12;10:142.PMID: 19435516 [PubMed - indexed for MEDLINE]Related articlesFree article

A new method to measure the semantic similarity of GO terms.

Wang JZ, Du Z, Payattakool R, Yu PS, Chen CF.

Bioinformatics. 2007 May 15;23(10):1274-81. Epub 2007 Mar 7.PMID: 17344234 [PubMed - indexed for MEDLINE]Related articlesFree article

FunSimMat: a comprehensive functional similarity database.

Schlicker A, Albrecht M.

Nucleic Acids Res. 2008 Jan;36(Database issue):D434-9. Epub 2007 Oct 11.PMID: 17932054 [PubMed - indexed for MEDLINE]Related articlesFree article

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

Investigating semantic similarity measures across the Gene Ontology: the relationship between sequence and annotation.

Lord PW, Stevens RD, Brass A, Goble CA.

Bioinformatics. 2003 Jul 1;19(10):1275-83.PMID: 12835272 [PubMed - indexed for MEDLINE]Related articlesFree article

Semantic similarity in biomedical ontologies.

Pesquita C, Faria D, Falcão AO, Lord P, Couto FM.

PLoS Comput Biol. 2009 Jul;5(7):e1000443. Epub 2009 Jul 31. Review.PMID: 19649320 [PubMed - indexed for MEDLINE]Related articlesFree article

Assessing protein similarity with Gene Ontology and its use in subnuclear localization prediction.

Lei Z, Dai Y.

BMC Bioinformatics. 2006 Nov 7;7:491.PMID: 17090318 [PubMed - indexed for MEDLINE]Related articlesFree article

Rapid detection of similarity in protein structure and function through contact metric distances.

Lisewski AM, Lichtarge O.

Nucleic Acids Res. 2006;34(22):e152. Epub 2006 Nov 27.PMID: 17130161 [PubMed - indexed for MEDLINE]Related articlesFree article

Automatic extraction of gene ontology annotation and its correlation with clusters in protein networks.

Daraselia N, Yuryev A, Egorov S, Mazo I, Ispolatov I.

BMC Bioinformatics. 2007 Jul 10;8:243.PMID: 17620146 [PubMed - indexed for MEDLINE]Related articlesFree article

Assessment of disease named entity recognition on a corpus of annotated sentences.

Jimeno A, Jimenez-Ruiz E, Lee V, Gaudan S, Berlanga R, Rebholz-Schuhmann D.

BMC Bioinformatics. 2008 Apr 11;9 Suppl 3:S3.PMID: 18426548 [PubMed - indexed for MEDLINE]Related articlesFree article

ProLoc-GO: utilizing informative Gene Ontology terms for sequence-based prediction of protein subcellular localization.

Huang WL, Tung CW, Ho SW, Hwang SF, Ho SY.

BMC Bioinformatics. 2008 Feb 1;9:80.PMID: 18241343 [PubMed - indexed for MEDLINE]Related articlesFree article