From owner-bionews@hgmp.mrc.ac.uk Thu Apr 1 03:11:35 2004 Return-Path: X-Original-To: bionews-outgoing Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with SMTP id C245A7D152 for ; Thu, 1 Apr 2004 03:11:34 +0100 (BST) X-Original-To: bionews-list@hgmp.mrc.ac.uk Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 273817D0CA for ; Thu, 1 Apr 2004 03:11:34 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6022) id 6168B7D143; Thu, 1 Apr 2004 03:11:32 +0100 (BST) X-Original-To: bionet-announce@net.bio.net Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 211D17D1B9 for ; Wed, 31 Mar 2004 10:28:45 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 60001) id 8C4337D0EA; Wed, 31 Mar 2004 10:28:43 +0100 (BST) To: bionet-announce@net.bio.net From: Elisabeth.Gasteiger@isb-sib.ch (Elisabeth Gasteiger) Newsgroups: bionet.announce Subject: Swiss-Prot release 43 available Organization: BIOSCI/MRC Rosalind Franklin Centre for Genomics Research Message-ID: <406A8F1F.2030904@isb-sib.ch> MIME-Version: 1.0 Content-Type: text/plain; charset=us-ascii; format=flowed Content-Transfer-Encoding: 7bit X-Original-To: bionews@net.bio.net X-Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 999B97D0C8 for ; Wed, 31 Mar 2004 10:28:42 +0100 (BST) X-Received: from expasy-ng.isb-sib.ch (expasy-f.unige.ch [192.33.215.142]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 5DD467D0EA for ; Wed, 31 Mar 2004 10:28:38 +0100 (BST) X-Received: from isb-sib.ch (lin-000 [192.33.215.254]) (authenticated bits=0) by expasy-ng.isb-sib.ch (8.12.10/8.12.8) with ESMTP id i2V9Rxrm011352 (version=TLSv1/SSLv3 cipher=RC4-MD5 bits=128 verify=NOT); Wed, 31 Mar 2004 11:27:59 +0200 X-Reply-To: Elisabeth.Gasteiger@isb-sib.ch X-User-Agent: Mozilla/5.0 (X11; U; Linux i686; en-US; rv:1.6) Gecko/20040113 X-Accept-Language: en-us, en X-To: bionews@net.bio.net X-sib-MailScanner-Information: Please contact the ISP for more information X-sib-MailScanner: Found to be clean Date: Thu, 1 Apr 2004 03:11:32 +0100 (BST) Sender: owner-bionews@hgmp.mrc.ac.uk Precedence: bulk (I) DATABASE AVAILABILITY ANNOUNCEMENT Name : Swiss-Prot Description : Protein knowledgebase. Release : 43.0 of March 2004 Statistics : 146'720 fully annotated sequences, 54'093'154 amino acids, 113'719 references. Citations : Boeckmann B., Bairoch A., Apweiler R., Blatter M.-C., Estreicher A., Gasteiger E., Martin M.J., Michoud K., O'Donovan C., Phan I., Pilbout S. and Schneider M. The Swiss-Prot protein knowledgebase and its supplement TrEMBL in 2003. Nucleic Acids Res. 31:365-370(2003). Apweiler R., Bairoch A., Wu C.H., Barker W.C., Boeckmann B., Ferro S., Gasteiger E., Huang H., Lopez R., Magrane M., Martin M.J., Natale D.A., O'Donovan C., Redaschi N. and Yeh L.S. UniProt: the Universal Protein knowledgebase. Nucleic Acids Res. 32:D115-D119(2004). Availability: FTP: ftp://ftp.expasy.org/databases/uniprot/knowledgebase ftp://ftp.expasy.org/databases/swiss-prot ftp://ftp.ebi.ac.uk/pub/databases/uniprot/knowledgebase ftp://ftp.ebi.ac.uk/pub/databases/swissprot WWW: http://www.expasy.org/sprot/ http://www.ebi.ac.uk/sprot/ --------------------------------------------------------------------- (II) SUMMARY OF CURRENT CHANGES AND FUTURE DEVELOPMENTS IN SWISS-PROT. Note: a much more complete description of the changes and future developments is available from the release notes. The release notes can be accessed from the WWW at the address: http://www.expasy.org/sprot/relnotes/ or downloaded by FTP from: ftp://ftp.expasy.org/databases/swiss-prot/release/relnotes.htm ftp://ftp.ebi.ac.uk/pub/databases/swissprot/release/relnotes.htm A) Summary of the changes in Swiss-Prot release 43 In Swiss-Prot: - Release 43.0 of Swiss-Prot contains 146'720 sequence entries, comprising 54'093'154 amino acids abstracted from 113'719 references. 10'760 sequences have been added since release 42, the sequence data of 663 existing entries has been updated and the annotations of 44'948 entries have been revised. This represents an increase of 8%. - The High-quality Automated and Manual Annotation of microbial Proteomes (HAMAP) project is progressing. It aims to annotate a significant percentage of proteins which originate from microbial genome sequencing projects. There are currently 167 complete proteomes in Swiss-Prot and TrEMBL. The HAMAP web site was enhanced with many new features: http://www.expasy.org/sprot/hamap/ - The Human Proteomics Initiative (HPI) project is progressing. There are currently 10'691 annotated human sequences in Swiss-Prot. Up-to-date detailed statistics concerning the HPI project, as well as detailed project information, are available at: http://www.expasy.org/sprot/hpi/ - A new comment (CC) topic 'RNA EDITING' has been introduced to convey information relevant to all types of RNA editing that lead to one or more amino acid changes. - We have added cross-references from Swiss-Prot to the following databases: DictyBase, PhotoList and RGD. Links to DictyDB have been removed in agreement with the maintainers of both DictyDB and DictyBase. - All the recent changes to Swiss-Prot format are described in detail in the continuously updated document: http://www.expasy.org/sprot/relnotes/sp_news.html - The ExPASy WWW server was the target of many improvements that are all described at the address: http://www.expasy.org/history.html B) Future developments Forthcoming format changes are listed in the continuously updated document http://www.expasy.org/sprot/relnotes/sp_soon.html ---------------------------------------------------------------------------- Swiss-Prot is copyright. It is produced through a collaboration between the Swiss Institute of Bioinformatics and the EMBL Outstation - the European Bioinformatics Institute. There are no restrictions on its use by non-profit institutions as long as its content is in no way modified. Usage by and for commercial entities requires a license agreement. For information about the licensing scheme see: http://www.isb-sib.ch/announce/ or send an email to license@isb-sib.ch. ---------------------------------------------------------------------------- -- ----------------------------------------------------------------- Elisabeth Gasteiger Swiss Institute of Bioinformatics CMU - 1, rue Michel Servet Tel. (+41 22) 379 58 75 CH - 1211 Geneva 4 Switzerland Fax (+41 22) 379 58 58 Elisabeth.Gasteiger@isb-sib.ch http://www.expasy.org/ ----------------------------------------------------------------- --- .