From owner-announce@net.bio.net Wed Dec 01 20:02:22 1999 Path: hgmp.mrc.ac.uk!not-for-mail From: "Claire O'Donovan" Newsgroups: bionet.announce Subject: TrEMBL release 12 announcement Date: 1 Dec 1999 20:02:21 -0000 Organization: EMBL-EBI Lines: 104 Approved: modmail@eosbiotech.com Message-ID: <823usd$5nl$1@mercury.hgmp.mrc.ac.uk> NNTP-Posting-Host: mercury.hgmp.mrc.ac.uk X-Trace: niobium.hgmp.mrc.ac.uk 944078542 5211 193.62.192.80 (1 Dec 1999 20:02:22 GMT) X-Complaints-To: news@hgmp.mrc.ac.uk NNTP-Posting-Date: 1 Dec 1999 20:02:22 GMT Xref: hgmp.mrc.ac.uk bionet.announce:154 INTRODUCTION ============ TrEMBL is a protein sequence database supplementing the SWISS-PROT Protein Sequence Data Bank. TrEMBL contains the translations of all coding sequences (CDS) present in the EMBL Nucleotide Sequence Database not yet integrated in SWISS-PROT. TrEMBL can be considered as a preliminary section of SWISS-PROT. For all TrEMBL entries which should finally be upgraded to the standard SWISS-PROT quality, SWISS-PROT accession numbers have been assigned. RELEASE 12.0 OF TrEMBL ===================== This TrEMBL release was created from the EMBL Nucleotide Sequence Database release 60 and contains 276'472 sequence entries, comprising 75'524'740 amino acids. To minimize redundancy, the translations of all coding sequences (CDS) in the EMBL Nucleotide Sequence Database already included in SWISS-PROT release 38 and updates up to 18.10.1999 have been removed from TrEMBl release 12. TrEMBL is split in two main sections; SP-TrEMBL and REM-TrEMBL: SP-TrEMBL (SWISS-PROT TrEMBL) contains the entries (225'878), which should be eventually incorporated into SWISS-PROT. SWISS-PROT accession numbers have been assigned for all SP-TrEMBL entries. SP-TrEMBL is organized in subsections: arc.dat (Archaea): 10017 entries fun.dat (Fungi): 7130 entries hum.dat (Human): 9417 entries inv.dat (Invertebrates): 26516 entries mam.dat (Other Mammals): 3498 entries mhc.dat (MHC proteins): 4563 entries org.dat (Organelles): 18993 entries phg.dat (Bacteriophages): 2201 entries pln.dat (Plants): 18993 entries pro.dat (Prokaryotes): 51151 entries rod.dat (Rodents): 7992 entries unc.dat (Unclassified): 129 entries vrl.dat (Viruses): 61006 entries vrt.dat (Other Vertebrates): 4897 entries REM-TrEMBL (REMaining TrEMBL) contains the entries (50'566) that we do not want to include in SWISS-PROT. WEEKLY UPDATES OF TrEMBL AND NON-REDUNDANT DATA SETS ==================================================== Weekly cumulative updates of TrEMBL are available by anonymous FTP and from the EBI SRS server. We also produce every week a complete non-redundant protein sequence collection by providing three compressed files (these are in the directory /pub/databases/sp_tr_nrdb on the EBI FTP server): sprot.dat.Z, trembl.dat.Z and trembl_new.dat.Z. ACCESS/DATA DISTRIBUTION ======================== FTP server: ftp.ebi.ac.uk/pub/databases/trembl SRS server: http://srs.ebi.ac.uk/ TREMBL is also available on the SWISS-PROT CD-ROM. SWISS-PROT + TREMBL is searchable on the FASTA3, BLAST2 and Bic_sw servers of the EBI. TrEMBL HAS BEEN PREPARED BY: ============================ Rolf Apweiler, Kirsty Bates, Margaret Biswas, Sergio Contrino, Wolfgang Fleischmann, Gill Fraser, Cathy Gedman, Henning Hermjakob, Vivien Junker, Youla Karavidopoulou, Fiona Lang, Minna Lehvaslaiho, Michele Magrane, Maria Jesus Martin, Steffen Moeller, Nicoletta Mitaritonna, Virginie Mittard, Nicola Mulder, Claire O'Donovan, Isabelle Phan, Sandrine Pilbout, Lucia Rodriguez-Monge and Eleanor Whitfield at the EMBL Outstation - European Bioinformatics Institute (EBI) in Hinxton, UK; Amos Bairoch and Alain Gateau at the Swiss Institute of Bioinformatics in Geneva, Switzerland. ----------------------------------------------------------------- Claire O'Donovan email:odonovan@ebi.ac.uk EMBL Outstation EBI (European Bioinformatics Institute) URL: http://www.ebi.ac.uk Wellcome Trust Genome Campus Tel: +44 (1223) 494460 Hinxton fax: +44 (1223) 494468 Cambridge CB10 1SD UK ----------------------------------------------------------------- .