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TRANSFAC 3.2
Introduction
TRANSFAC is a database on eukaryotic cis-acting regulatory DNA elements and trans-acting factors. It covers the whole range from yeast to human. It consists of six cross-linked tables: SITE, CELL,FACTOR, CLASS, MATRIX andGENE.
TRANSFAC is also cross-linked with TRRD (Transcription Regulatory Region Database) and COMPEL from the ICG, Novosibirsk (N. A. Kolchanov, A. E. Kel). It contains numerous cross-references to external databases such EMBL, SWISSPROT, PIR, FLYBASE, EPD, and PROSITE.
New features
Additional FACTOR and SITE entries,
cross-references to PDB,
comprehensive linkage of FACTOR entries with a proposed transcription factor classification sytem.
Availability
The TRANSFAC database comes along with several sequence analysis tools such as PatSearch, which uses the sequence information contained in theSITE table for analysis of submitted sequences, and MatInspector, using a library of matrices selected from the TRANSFAC MATRIX table.
For non-commercial use, the database is freely available at the anonymous ftp server of the Society for BioTechnology Research (Germany).
Information provided by: Thomas Heinemeyer
Resources and further information
Society for BioTechnology Research GBF (Germany)
http://www.gbf.de/welcomee.html
Project "Molecular Bioinformatics of Gene Regulation"
http://transfac.gbf.de/
TRANSFAC homepage
http://transfac.gbf.de/TRANSFAC/index.html
Download TRANSFAC
ftp://transfac.gbf.de/pub/transfac/ascii/
Literature:
Wingender et al., Nucleic Acids Res. 25:265-268, 1997.
Quandt et al., Nucleic Acids Res. 23:4878-4884, 1995
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