RegulonDB (http://regulondb.ccg.unam.mx/) is specialized on transcriptional regulation of Escherichia coli. For eukaryotes there is TRANSFAC (http://genexplain.com/transfac/).

There are many public access algorithms and software's that determine transcription factors according to their consensus sequences.

a) For prediction of promoter regions:

BDGP: http://www.fruitfly.org/seq_tools/promoter.html Softberry:

http://linux1.softberry.com/berry.phtml?topic=index&group=programs&subgroup=promot er

Queen's University: http://molbiol-tools.ca/promscan/

Technical University of Braunschweig: http://www.prodoric.de/vfp/ University of Groningen (Hidden Markov Models):

http://bioinformatics.biol.rug.nl/websoftware/ppp/ppp_start.php SCOPE @ Dartmouth college: http://genie.dartmouth.edu/scope/

Technical University of Denmark: http://www.cbs.dtu.dk/services/Promoter/ Boston University: http://biowulf.bu.edu/zlab/PromoSer/

Swiss Institute of Bioinformatics: http://www.ch.embnet.org/software/aBLAST.html NIH: http://www-bimas.cit.nih.gov/molbio/proscan/

b) Regulatory regions analysis:

ALGGEN (http://alggen.lsi.upc.es), ConSite (http://consite. genereg.net/), Research Center Japan: http://www.cbrc.jp/research/db/TFSEARCH.html

TFBind: http://tfbind.hgc.jp/

BioBase (non-free): http://www.gene-regulation.com/pub/programs.html, TRANSFAC (http://genexplain.com/transfac/), and others such as

TFSITESCAN, DBD, CONREAL,TFmiR or alibaba.

awo! great, thanks