[BiO BB] Transcription factors prediction
jstroud at mbi.ucla.edu
Tue Mar 8 17:23:16 EST 2005
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,
Nature. 2005 Feb 27; [Epub ahead of print]
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.
> The suggestion in the article to obtain the best results is to analyze your
> sequences with both these software :
> Weeder Web: http://18.104.22.168:8080/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)
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James Stroud, Ph.D.
UCLA-DOE Institute for Genomics and Proteomics
Los Angeles, CA 90095
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