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Protein function annotation by homology-based inference.

Loewenstein Y, Raimondo D, Redfern OC, Watson J, Frishman D, Linial M, Orengo C, Thornton J, Tramontano A.

Genome Biol. 2009 Feb 2;10(2):207.PMID: 19226439 [PubMed - in process]Related articlesFree article

Beyond annotation transfer by homology: novel protein-function prediction methods to assist drug discovery.

Ofran Y, Punta M, Schneider R, Rost B.

Drug Discov Today. 2005 Nov 1;10(21):1475-82. Review.PMID: 16243268 [PubMed - indexed for MEDLINE]Related articles

A computational study of Shewanella oneidensis MR-1: structural prediction and functional inference of hypothetical proteins.

Yost C, Hauser L, Larimer F, Thompson D, Beliaev A, Zhou J, Xu Y, Xu D.

OMICS. 2003 Summer;7(2):177-91.PMID: 14506847 [PubMed - indexed for MEDLINE]Related articles

Identification of similar regions of protein structures using integrated sequence and structure analysis tools.

Peters B, Moad C, Youn E, Buffington K, Heiland R, Mooney S.

BMC Struct Biol. 2006 Mar 9;6:4.PMID: 16526955 [PubMed - indexed for MEDLINE]Related articlesFree article

Automatic annotation of protein function based on family identification.

Abascal F, Valencia A.

Proteins. 2003 Nov 15;53(3):683-92.PMID: 14579359 [PubMed - indexed for MEDLINE]Related articles

Identification of novel DNA repair proteins via primary sequence, secondary structure, and homology.

Brown JB, Akutsu T.

BMC Bioinformatics. 2009 Jan 20;10:25.PMID: 19154573 [PubMed - indexed for MEDLINE]Related articlesFree article

ESG: extended similarity group method for automated protein function prediction.

Chitale M, Hawkins T, Park C, Kihara D.

Bioinformatics. 2009 Jul 15;25(14):1739-45. Epub 2009 May 12.PMID: 19435743 [PubMed - indexed for MEDLINE]Related articles

Functional annotation of hypothetical proteins - A review.

Sivashankari S, Shanmughavel P.

Bioinformation. 2006 Dec 29;1(8):335-8.PMID: 17597916 [PubMed]Related articlesFree article

Structure-based inference of molecular functions of proteins of unknown function from Berkeley Structural Genomics Center.

Shin DH, Hou J, Chandonia JM, Das D, Choi IG, Kim R, Kim SH.

J Struct Funct Genomics. 2007 Sep;8(2-3):99-105. Epub 2007 Sep 2. Review.PMID: 17764033 [PubMed - indexed for MEDLINE]Related articles

Comparative genomics-based prediction of protein function.

Gabaldón T.

Methods Mol Biol. 2008;439:387-401.PMID: 18370117 [PubMed - indexed for MEDLINE]Related articles

Automated structure-based prediction of functional sites in proteins: applications to assessing the validity of inheriting protein function from homology in genome annotation and to protein docking.

Aloy P, Querol E, Aviles FX, Sternberg MJ.

J Mol Biol. 2001 Aug 10;311(2):395-408.PMID: 11478868 [PubMed - indexed for MEDLINE]Related articles

Automated protein function prediction--the genomic challenge.

Friedberg I.

Brief Bioinform. 2006 Sep;7(3):225-42. Epub 2006 May 23. Review.PMID: 16772267 [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

[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

Automated protein structure homology modeling: a progress report.

Kopp J, Schwede T.

Pharmacogenomics. 2004 Jun;5(4):405-16. Review.PMID: 15165176 [PubMed - indexed for MEDLINE]Related articles

Genome annotation assessment in Drosophila melanogaster.

Reese MG, Hartzell G, Harris NL, Ohler U, Abril JF, Lewis SE.

Genome Res. 2000 Apr;10(4):483-501.PMID: 10779488 [PubMed - indexed for MEDLINE]Related articlesFree article

Computational methods for protein-protein interaction and their application.

Shi TL, Li YX, Cai YD, Chou KC.

Curr Protein Pept Sci. 2005 Oct;6(5):443-9. Review.PMID: 16248796 [PubMed - indexed for MEDLINE]Related articles

The prediction of protein subcellular localization from sequence: a shortcut to functional genome annotation.

Casadio R, Martelli PL, Pierleoni A.

Brief Funct Genomic Proteomic. 2008 Jan;7(1):63-73. Epub 2008 Feb 18. Review.PMID: 18283051 [PubMed - indexed for MEDLINE]Related articlesFree article

Advances and pitfalls in protein structure prediction.

Cozzetto D, Tramontano A.

Curr Protein Pept Sci. 2008 Dec;9(6):567-77. Review.PMID: 19075747 [PubMed - indexed for MEDLINE]Related articles

Prediction of enzyme function based on 3D templates of evolutionarily important amino acids.

Kristensen DM, Ward RM, Lisewski AM, Erdin S, Chen BY, Fofanov VY, Kimmel M, Kavraki LE, Lichtarge O.

BMC Bioinformatics. 2008 Jan 11;9:17.PMID: 18190718 [PubMed - indexed for MEDLINE]Related articlesFree article