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Automatically extracting functionally equivalent proteins from SwissProt.

McMillan LE, Martin AC.

BMC Bioinformatics. 2008 Oct 6;9:418.PMID: 18838004 [PubMed - indexed for MEDLINE]Related articlesFree article

Mining sequence annotation databanks for association patterns.

Artamonova II, Frishman G, Gelfand MS, Frishman D.

Bioinformatics. 2005 Nov 1;21 Suppl 3:iii49-57.PMID: 16306393 [PubMed - indexed for MEDLINE]Related articlesFree article

HAMAP: a database of completely sequenced microbial proteome sets and manually curated microbial protein families in UniProtKB/Swiss-Prot.

Lima T, Auchincloss AH, Coudert E, Keller G, Michoud K, Rivoire C, Bulliard V, de Castro E, Lachaize C, Baratin D, Phan I, Bougueleret L, Bairoch A.

Nucleic Acids Res. 2009 Jan;37(Database issue):D471-8. Epub 2008 Oct 11.PMID: 18849571 [PubMed - indexed for MEDLINE]Related articlesFree article

Mapping PDB chains to UniProtKB entries.

Martin AC.

Bioinformatics. 2005 Dec 1;21(23):4297-301. Epub 2005 Sep 27.PMID: 16188924 [PubMed - indexed for MEDLINE]Related articlesFree article

The Universal Protein Resource (UniProt): an expanding universe of protein information.

Wu CH, Apweiler R, Bairoch A, Natale DA, Barker WC, Boeckmann B, Ferro S, Gasteiger E, Huang H, Lopez R, Magrane M, Martin MJ, Mazumder R, O'Donovan C, Redaschi N, Suzek B.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D187-91.PMID: 16381842 [PubMed - indexed for MEDLINE]Related articlesFree article

UniProtKB/Swiss-Prot.

Boutet E, Lieberherr D, Tognolli M, Schneider M, Bairoch A.

Methods Mol Biol. 2007;406:89-112.PMID: 18287689 [PubMed - indexed for MEDLINE]Related articles

Automatic rule generation for protein annotation with the C4.5 data mining algorithm applied on SWISS-PROT.

Kretschmann E, Fleischmann W, Apweiler R.

Bioinformatics. 2001 Oct;17(10):920-6.PMID: 11673236 [PubMed - indexed for MEDLINE]Related articlesFree article

The UniProtKB/Swiss-Prot knowledgebase and its Plant Proteome Annotation Program.

Schneider M, Lane L, Boutet E, Lieberherr D, Tognolli M, Bougueleret L, Bairoch A.

J Proteomics. 2009 Apr 13;72(3):567-73. Epub 2008 Nov 24.PMID: 19084081 [PubMed - indexed for MEDLINE]Related articles

SSMap: a new UniProt-PDB mapping resource for the curation of structural-related information in the UniProt/Swiss-Prot Knowledgebase.

David FP, Yip YL.

BMC Bioinformatics. 2008 Sep 23;9:391.PMID: 18811932 [PubMed - indexed for MEDLINE]Related articlesFree article

Annotating single amino acid polymorphisms in the UniProt/Swiss-Prot knowledgebase.

Yip YL, Famiglietti M, Gos A, Duek PD, David FP, Gateau A, Bairoch A.

Hum Mutat. 2008 Mar;29(3):361-6.PMID: 18175334 [PubMed - indexed for MEDLINE]Related articles

The annotation of both human and mouse kinomes in UniProtKB/Swiss-Prot: one small step in manual annotation, one giant leap for full comprehension of genomes.

Braconi Quintaje S, Orchard S.

Mol Cell Proteomics. 2008 Aug;7(8):1409-19. Epub 2008 Apr 24. Review.PMID: 18436524 [PubMed - indexed for MEDLINE]Related articlesFree article

Integrating protein-protein interactions and text mining for protein function prediction.

Jaeger S, Gaudan S, Leser U, Rebholz-Schuhmann D.

BMC Bioinformatics. 2008 Jul 22;9 Suppl 8:S2. [Epub ahead of print]PMID: 18673526 [PubMed - as supplied by publisher]Related articlesFree article

UniSave: the UniProtKB sequence/annotation version database.

Leinonen R, Nardone F, Zhu W, Apweiler R.

Bioinformatics. 2006 May 15;22(10):1284-5. Epub 2006 Mar 21.PMID: 16551660 [PubMed - indexed for MEDLINE]Related articlesFree article

Annotation of protein residues based on a literature analysis: cross-validation against UniProtKb.

Nagel K, Jimeno-Yepes A, Rebholz-Schuhmann D.

BMC Bioinformatics. 2009 Aug 27;10 Suppl 8:S4.PMID: 19758468 [PubMed - indexed for MEDLINE]Related articlesFree article

Protein sequence annotation in the genome era: the annotation concept of SWISS-PROT+TREMBL.

Apweiler R, Gateau A, Contrino S, Martin MJ, Junker V, O'Donovan C, Lang F, Mitaritonna N, Kappus S, Bairoch A.

Proc Int Conf Intell Syst Mol Biol. 1997;5:33-43.PMID: 9322012 [PubMed - indexed for MEDLINE]Related articles

Evaluation of BioCreAtIvE assessment of task 2.

Blaschke C, Leon EA, Krallinger M, Valencia A.

BMC Bioinformatics. 2005;6 Suppl 1:S16. Epub 2005 May 24.PMID: 15960828 [PubMed - indexed for MEDLINE]Related articlesFree article

The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003.

Boeckmann B, Bairoch A, Apweiler R, Blatter MC, Estreicher A, Gasteiger E, Martin MJ, Michoud K, O'Donovan C, Phan I, Pilbout S, Schneider M.

Nucleic Acids Res. 2003 Jan 1;31(1):365-70.PMID: 12520024 [PubMed - indexed for MEDLINE]Related articlesFree article

Identification and correction of abnormal, incomplete and mispredicted proteins in public databases.

Nagy A, Hegyi H, Farkas K, Tordai H, Kozma E, Bányai L, Patthy L.

BMC Bioinformatics. 2008 Aug 27;9:353.PMID: 18752676 [PubMed - indexed for MEDLINE]Related articlesFree article

Plant protein annotation in the UniProt Knowledgebase.

Schneider M, Bairoch A, Wu CH, Apweiler R.

Plant Physiol. 2005 May;138(1):59-66.PMID: 15888679 [PubMed - indexed for MEDLINE]Related articlesFree article

The Swiss-Prot protein knowledgebase and ExPASy: providing the plant community with high quality proteomic data and tools.

Schneider M, Tognolli M, Bairoch A.

Plant Physiol Biochem. 2004 Dec;42(12):1013-21. Epub 2004 Dec 15. Review.PMID: 15707838 [PubMed - indexed for MEDLINE]Related articles