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TrEMBL release 6.0
Published June 1, 1998
TREMBL Release Notes Release 6, June 1998 EMBL Outstation European Bioinformatics Institute (EBI) Wellcome Trust Genome Campus Hinxton Cambridge CB10 1SD United Kingdom Telephone: (+44 1223) 494 400 Fax: (+44 1223) 494 468 Electronic mail address: DATALIB@EBI.AC.UK WWW server: http://www.ebi.ac.uk/ Amos Bairoch Medical Biochemistry Department Centre Medical Universitaire 1211 Geneva 4 Switzerland Telephone: (+41 22) 784 40 82 Fax: (+41 22) 702 55 02 Electronic mail address: BAIROCH@CMU.UNIGE.CH WWW server: http://www.expasy.ch/ 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 6.0 OF TREMBL ===================== This TREMBL release is created from the EMBL Nucleotide Sequence Database release 54 and contains 177'757 sequence entries, comprising 48'796'878 amino acids. TREMBL is split in two main sections; SP-TREMBL and REM-TREMBL: SP-TREMBL (SWISS-PROT TREMBL) contains the entries (150'329) 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 (Archea): 5556 entries (new section) fun.dat (Fungi): 4781 entries hum.dat (Human): 6312 entries inv.dat (Invertebrates): 20364 entries mam.dat (Other Mammals): 2450 entries mhc.dat (MHC proteins): 3524 entries org.dat (Organelles): 11685 entries phg.dat (Bacteriophages): 1240 entries pln.dat (Plants): 11217 entries pro.dat (Prokaryotes): 32000 entries rod.dat (Rodents): 5913 entries unc.dat (Unclassified): 88 entries vrl.dat (Viruses): 41882 entries vrt.dat (Other Vertebrates): 3317 entries REM-TREMBL (REMaining TREMBL) contains the entries (27'428) 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:5000/ 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, Christian Desaintes, Sergio Contrino, Wolfgang Fleischmann, Henning Hermjakob, Vivien Junker, Stephanie Kappus, Fiona Lang, Michele Magrane, Maria Jesus Martin, Steffen Moeller, Nicoletta Mitaritonna and Claire O'Donovan at the EMBL Outstation - European Bioinformatics Institute (EBI) in Hinxton, UK; Amos Bairoch and Alain Gateau at the Medical Biochemistry Department of the University of Geneva, Switzerland. Notes ===== This manual and the database it accompanies may be copied and redistributed freely, without advance permission, provided that this statement is reproduced with each copy. Citation ======== If you want to cite TREMBL in a publication please use the following reference: Bairoch A., and Apweiler R. The SWISS-PROT protein sequence data bank and its supplement TREMBL in 1998. Nucleic Acids Res. 26:38-42(1998).