Release 6 of TREMBL, a protein sequence database supplementing SWISS-PROT

Rolf Apweiler apweiler at ebi.ac.uk
Mon Jun 29 20:20:48 EST 1998


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.


=======================================================================
Rolf Apweiler                           | SWISS-PROT Coordinator
EMBL Outstation                         | Email:apweiler at ebi.ac.uk
European Bioinformatics Institute (EBI) | URL:  http://www.ebi.ac.uk
Wellcome Trust Genome Campus, Hinxton   | Tel:  +44 (1223) 494435
Cambridge CB10 1SD, UK                  | Fax:  +44 (1223) 494968
========================================================================








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