Sat, 05 Jul 2008 21:37:57 BST CiteULike: jyuh's Bairoch http://www.citeulike.org/user/jyuh/author/Bairoch CiteULike.org en-gb Copyright © 2004-2008 citeulike.org http://www.citeulike.org/user/jyuh/article/2782608 <i>Human mutation, Vol. 29, No. 3. (March 2008), pp. 361-366.</i><br /><br />UniProtKB/Swiss-Prot (http://beta.uniprot.org/uniprot; last accessed: 19 October 2007) is a manually curated knowledgebase providing information on protein sequences and functional annotation. It is part of the Universal Protein Resource (UniProt). The knowledgebase currently records a total of 32,282 single amino acid polymorphisms (SAPs) touching 6,086 human proteins (Release 53.2, 26 June 2007). Nearly all SAPs are derived from literature reports using strict inclusion criteria. For each SAP, the knowledgebase provides, apart from the position of the mutation and the resulting change in amino acid, information on the effects of SAPs on protein structure and function, as well as their potential involvement in diseases. Presently, there are 16,043 disease-related SAPs, 14,266 polymorphisms, and 1,973 unclassified variants recorded in UniProtKB/Swiss-Prot. Relevant information on SAPs can be found in various sections of a UniProtKB/Swiss-Prot entry. In addition to these, cross-references to human disease databases as well as other gene-specific databases, are being added regularly. In 2003, the Swiss-Prot variant pages were created to provide a concise view of the information related to the SAPs recorded in the knowledgebase. When compared to the information on missense variants listed in other mutation databases, UniProtKB/Swiss-Prot further records information on direct protein sequencing and characterization including posttranslational modifications (PTMs). The direct links to the Online Mendelian Inheritance in Man (OMIM) database entries further enhance the integration of phenotype information with data at protein level. In this regard, SAP information in UniProtKB/Swiss-Prot complements nicely those existing in genomic and phenotypic databases, and is valuable for the understanding of SAPs and diseases. Annotating single amino acid polymorphisms in the UniProt/Swiss-Prot knowledgebase. YL Yip M Famiglietti A Gos PD Duek FP David A Gateau A Bairoch doi:10.1002/humu.20671 Human mutation, Vol. 29, No. 3. (March 2008), pp. 361-366. 2008-05-10T09:00:00-00:00 2008 Human mutation 1098-1004 29 3 361 366 no-tag http://www.citeulike.org/user/jyuh/article/1306335 <i>Nucleic Acids Res, Vol. 35, No. Database issue. (January 2007)</i><br /><br />InterPro is an integrated resource for protein families, domains and functional sites, which integrates the following protein signature databases: PROSITE, PRINTS, ProDom, Pfam, SMART, TIGRFAMs, PIRSF, SUPERFAMILY, Gene3D and PANTHER. The latter two new member databases have been integrated since the last publication in this journal. There have been several new developments in InterPro, including an additional reading field, new database links, extensions to the web interface and additional match XML files. InterPro has always provided matches to UniProtKB proteins on the website and in the match XML file on the FTP site. Additional matches to proteins in UniParc (UniProt archive) are now available for download in the new match XML files only. The latest InterPro release (13.0) contains more than 13 000 entries, covering over 78% of all proteins in UniProtKB. The database is available for text- and sequence-based searches via a webserver (http://www.ebi.ac.uk/interpro), and for download by anonymous FTP (ftp://ftp.ebi.ac.uk/pub/databases/interpro). The InterProScan search tool is now also available via a web service at http://www.ebi.ac.uk/Tools/webservices/WSInterProScan.html. New developments in the InterPro database. NJ Mulder R Apweiler TK Attwood A Bairoch A Bateman D Binns P Bork V Buillard L Cerutti R Copley E Courcelle U Das L Daugherty M Dibley R Finn W Fleischmann J Gough D Haft N Hulo S Hunter D Kahn A Kanapin A Kejariwal A Labarga PS Langendijk-Genevaux D Lonsdale R Lopez I Letunic M Madera J Maslen C McAnulla J McDowall J Mistry A Mitchell AN Nikolskaya S Orchard C Orengo R Petryszak JD Selengut CJ Sigrist PD Thomas F Valentin D Wilson CH Wu C Yeats Nucleic Acids Res, Vol. 35, No. Database issue. (January 2007) 2007-05-18T20:25:15-00:00 2007 Nucleic Acids Res 1362-4962 35 Database issue no-tag