[BiO BB] Transcription factors prediction

[Pooja Jain]

Hi Govind, 

Please have a look at YeaSTRACT, (www.yeastract.com). It can give you the 
documented binding sites for a given yeast TFs. 
 
Best Regards, 
-Pooja 

Quoting govind mk <mkgovindis at yahoo.com>:

> Hi all
> 
> Continuing on the same discussion of transcription
> factors ? I would like to know if there is any
> database which can give me a list of binding sites for
> a given transcription factor.
> 
> Refards,
> M.K.Govind
> 
> 
> --- James Stroud <jstroud at mbi.ucla.edu> wrote:
> > Not that it answers your question, but here is a
> > critical read on the subject:
> > 
> > Systematic discovery of regulatory motifs in human
> > promoters and 3' UTRs by 
> > comparison of several mammals.
> > Xie X, Lu J, Kulbokas EJ, Golub TR, Mootha V,
> > Lindblad-Toh K, Lander ES, 
> > Kellis M.
> > Nature. 2005 Feb 27; [Epub ahead of print]
> > 
> >
> http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?
cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=15735639
> > 
> > James
> > 
> > On Tuesday 08 March 2005 01:50 pm, Andrea
> > Franceschini wrote:
> > > In   "Nature Biotechnology  23, 137 - 144 
> > Published online: 06 January
> > > 2005; Assessing computational tools for the
> > discovery of transcription
> > > factor binding sites"  you can find the unswer to
> > your question.
> > >
> >
> http://www.nature.com/cgi-taf/DynaPage.taf?file=/nbt/journal/v23/n1/full/nb
> > >t1053.html
> > >
> > > The suggestion in the article to obtain the best
> > results is to analyze your
> > > sequences with both these software :
> > > Weeder Web:  http://159.149.109.16:8080/weederWeb/
> > > Motif Sampler:
> >
> http://www.esat.kuleuven.ac.be/~thijs/Work/MotifSampler.html
> > >
> > >
> > >
> > > Andrea Franceschini
> > >
> > >
> > >
> > >
> > >
> > > ----- Original Message -----
> > > From: "Davide Eletto" <deletto at unisa.it>
> > > To: "The general forum at Bioinformatics.Org"
> > > <bio_bulletin_board at bioinformatics.org>
> > > Sent: Tuesday, March 08, 2005 3:35 PM
> > > Subject: [BiO BB] Transcription factors prediction
> > >
> > > > Hi there,
> > > > anyone of you could be so kind to give me the
> > name of the most common
> > > > FREE *Transcription factors prediction *software
> > (online, indeed), that
> > > > is able to retrieve a list of putative nuclear
> > transc fact. by a DNA
> > > > sequence?
> > > >
> > > > Thanks a lot in advance
> > > >
> > > > davide eletto
> > > > ITALIA (one of six nations)
> > > > _______________________________________________
> > > > Bioinformatics.Org general forum  - 
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> > 
> > -- 
> > James Stroud, Ph.D.
> > UCLA-DOE Institute for Genomics and Proteomics
> > Box 951570
> > Los Angeles, CA 90095
> > _______________________________________________
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> >
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> 
> 
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