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Prediction of evolutionarily conserved interologs in Mus musculus.

Yellaboina S, Dudekula DB, Ko MSh.

BMC Genomics. 2008 Oct 8;9:465.PMID: 18842131 [PubMed - indexed for MEDLINE]Related articlesFree article

Protein-protein interactions more conserved within species than across species.

Mika S, Rost B.

PLoS Comput Biol. 2006 Jul 21;2(7):e79. Epub 2006 May 18.PMID: 16854211 [PubMed - indexed for MEDLINE]Related articlesFree article

Improving the specificity of high-throughput ortholog prediction.

Fulton DL, Li YY, Laird MR, Horsman BG, Roche FM, Brinkman FS.

BMC Bioinformatics. 2006 May 28;7:270.PMID: 16729895 [PubMed - indexed for MEDLINE]Related articlesFree article

Unequal evolutionary conservation of human protein interactions in interologous networks.

Brown KR, Jurisica I.

Genome Biol. 2007;8(5):R95.PMID: 17535438 [PubMed - indexed for MEDLINE]Related articlesFree article

Prediction of protein-protein interactions using distant conservation of sequence patterns and structure relationships.

Espadaler J, Romero-Isart O, Jackson RM, Oliva B.

Bioinformatics. 2005 Aug 15;21(16):3360-8. Epub 2005 Jun 16.PMID: 15961445 [PubMed - indexed for MEDLINE]Related articlesFree article

Annotation transfer between genomes: protein-protein interologs and protein-DNA regulogs.

Yu H, Luscombe NM, Lu HX, Zhu X, Xia Y, Han JD, Bertin N, Chung S, Vidal M, Gerstein M.

Genome Res. 2004 Jun;14(6):1107-18.PMID: 15173116 [PubMed - indexed for MEDLINE]Related articlesFree article

DroID: the Drosophila Interactions Database, a comprehensive resource for annotated gene and protein interactions.

Yu J, Pacifico S, Liu G, Finley RL Jr.

BMC Genomics. 2008 Oct 7;9:461.PMID: 18840285 [PubMed - indexed for MEDLINE]Related articlesFree article

The inference of protein-protein interactions by co-evolutionary analysis is improved by excluding the information about the phylogenetic relationships.

Sato T, Yamanishi Y, Kanehisa M, Toh H.

Bioinformatics. 2005 Sep 1;21(17):3482-9. Epub 2005 Jun 30.PMID: 15994190 [PubMed - indexed for MEDLINE]Related articlesFree article

An improved method for identifying functionally linked proteins using phylogenetic profiles.

Cokus S, Mizutani S, Pellegrini M.

BMC Bioinformatics. 2007 May 22;8 Suppl 4:S7.PMID: 17570150 [PubMed - indexed for MEDLINE]Related articlesFree article

False positive reduction in protein-protein interaction predictions using gene ontology annotations.

Mahdavi MA, Lin YH.

BMC Bioinformatics. 2007 Jul 23;8:262.PMID: 17645798 [PubMed - indexed for MEDLINE]Related articlesFree article

HomoMINT: an inferred human network based on orthology mapping of protein interactions discovered in model organisms.

Persico M, Ceol A, Gavrila C, Hoffmann R, Florio A, Cesareni G.

BMC Bioinformatics. 2005 Dec 1;6 Suppl 4:S21.PMID: 16351748 [PubMed - indexed for MEDLINE]Related articlesFree article

[Analysis, identification and correction of some errors of model refseqs appeared in NCBI Human Gene Database by in silico cloning and experimental verification of novel human genes]

Zhang DL, Ji L, Li YD.

Yi Chuan Xue Bao. 2004 May;31(5):431-43. Chinese. PMID: 15478601 [PubMed - indexed for MEDLINE]Related articles

An integrated approach to the prediction of domain-domain interactions.

Lee H, Deng M, Sun F, Chen T.

BMC Bioinformatics. 2006 May 25;7:269.PMID: 16725050 [PubMed - indexed for MEDLINE]Related articlesFree article

Reconstruction of human protein interolog network using evolutionary conserved network.

Huang TW, Lin CY, Kao CY.

BMC Bioinformatics. 2007 May 10;8:152.PMID: 17493278 [PubMed - indexed for MEDLINE]Related articlesFree article

Using shared genomic synteny and shared protein functions to enhance the identification of orthologous gene pairs.

Zheng XH, Lu F, Wang ZY, Zhong F, Hoover J, Mural R.

Bioinformatics. 2005 Mar;21(6):703-10. Epub 2004 Sep 30.PMID: 15458983 [PubMed - indexed for MEDLINE]Related articlesFree article

Protein-protein interaction map inference using interacting domain profile pairs.

Wojcik J, Schächter V.

Bioinformatics. 2001;17 Suppl 1:S296-305.PMID: 11473021 [PubMed - indexed for MEDLINE]Related articlesFree article

IntNetDB v1.0: an integrated protein-protein interaction network database generated by a probabilistic model.

Xia K, Dong D, Han JD.

BMC Bioinformatics. 2006 Nov 18;7:508.PMID: 17112386 [PubMed - indexed for MEDLINE]Related articlesFree article

Correlation between gene expression profiles and protein-protein interactions within and across genomes.

Bhardwaj N, Lu H.

Bioinformatics. 2005 Jun 1;21(11):2730-8. Epub 2005 Mar 29.PMID: 15797912 [PubMed - indexed for MEDLINE]Related articlesFree article

Comparative analysis of function and interaction of transcription factors in nematodes: extensive conservation of orthology coupled to rapid sequence evolution.

Haerty W, Artieri C, Khezri N, Singh RS, Gupta BP.

BMC Genomics. 2008 Aug 27;9:399.PMID: 18752680 [PubMed - indexed for MEDLINE]Related articlesFree article

Mulan: multiple-sequence local alignment and visualization for studying function and evolution.

Ovcharenko I, Loots GG, Giardine BM, Hou M, Ma J, Hardison RC, Stubbs L, Miller W.

Genome Res. 2005 Jan;15(1):184-94. Epub 2004 Dec 8.PMID: 15590941 [PubMed - indexed for MEDLINE]Related articlesFree article