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Novel metrics for evaluating the functional coherence of protein groups via protein semantic network.

Zheng B, Lu X.

Genome Biol. 2007;8(7):R153.PMID: 17672896 [PubMed - indexed for MEDLINE]Related articlesFree article

Using protein-semantic network metrics to evaluate functional coherence of protein groups.

Zheng B, Lu X.

AMIA Annu Symp Proc. 2007 Oct 11:1174.PMID: 18694270 [PubMed - indexed for MEDLINE]Related articles

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

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

Semantic role labeling for protein transport predicates.

Bethard S, Lu Z, Martin JH, Hunter L.

BMC Bioinformatics. 2008 Jun 11;9:277.PMID: 18547432 [PubMed - indexed for MEDLINE]Related articlesFree article

Information flow analysis of interactome networks.

Missiuro PV, Liu K, Zou L, Ross BC, Zhao G, Liu JS, Ge H.

PLoS Comput Biol. 2009 Apr;5(4):e1000350. Epub 2009 Apr 10.PMID: 19503817 [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

BIOSMILE: a semantic role labeling system for biomedical verbs using a maximum-entropy model with automatically generated template features.

Tsai RT, Chou WC, Su YS, Lin YC, Sung CL, Dai HJ, Yeh IT, Ku W, Sung TY, Hsu WL.

BMC Bioinformatics. 2007 Sep 1;8:325.PMID: 17764570 [PubMed - indexed for MEDLINE]Related articlesFree article

Empirical distributional semantics: methods and biomedical applications.

Cohen T, Widdows D.

J Biomed Inform. 2009 Apr;42(2):390-405. Epub 2009 Feb 14. Review.PMID: 19232399 [PubMed - indexed for MEDLINE]Related articles

Core and periphery structures in protein interaction networks.

Luo F, Li B, Wan XF, Scheuermann RH.

BMC Bioinformatics. 2009 Apr 29;10 Suppl 4:S8.PMID: 19426456 [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

Domain-oriented edge-based alignment of protein interaction networks.

Guo X, Hartemink AJ.

Bioinformatics. 2009 Jun 15;25(12):i240-6.PMID: 19477994 [PubMed - indexed for MEDLINE]Related articlesFree article

A genomewide functional network for the laboratory mouse.

Guan Y, Myers CL, Lu R, Lemischka IR, Bult CJ, Troyanskaya OG.

PLoS Comput Biol. 2008 Sep 26;4(9):e1000165.PMID: 18818725 [PubMed - indexed for MEDLINE]Related articlesFree article

Functional centrality: detecting lethality of proteins in protein interaction networks.

Tew KL, Li XL, Tan SH.

Genome Inform. 2007;19:166-77.PMID: 18546514 [PubMed - indexed for MEDLINE]Related articlesFree article

Assessing significance of connectivity and conservation in protein interaction networks.

Koyutürk M, Szpankowski W, Grama A.

J Comput Biol. 2007 Jul-Aug;14(6):747-64.PMID: 17691892 [PubMed - indexed for MEDLINE]Related articles

Integrative mining of traditional Chinese medicine literature and MEDLINE for functional gene networks.

Zhou X, Liu B, Wu Z, Feng Y.

Artif Intell Med. 2007 Oct;41(2):87-104. Epub 2007 Sep 5.PMID: 17804209 [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

Bridging protein local structures and protein functions.

Liu ZP, Wu LY, Wang Y, Zhang XS, Chen L.

Amino Acids. 2008 Oct;35(3):627-50. Epub 2008 Apr 18. Review.PMID: 18421562 [PubMed - indexed for MEDLINE]Related articles

Topological and organizational properties of the products of house-keeping and tissue-specific genes in protein-protein interaction networks.

Lin WH, Liu WC, Hwang MJ.

BMC Syst Biol. 2009 Mar 11;3:32.PMID: 19284572 [PubMed - indexed for MEDLINE]Related articlesFree article

Use artificial neural network to align biological ontologies.

Huang J, Dang J, Huhns MN, Zheng WJ.

BMC Genomics. 2008 Sep 16;9 Suppl 2:S16.PMID: 18831781 [PubMed - indexed for MEDLINE]Related articlesFree article