How to find the transcription factor that binds to a known sequence? - transcription factor (Mar/11/2009 )

Hi I am a beginner of genomics. I have got some predicted enhancers (their beginning and ending sites in the genome are known) in the genome, and now I wanna predict which transcription factors would bind to these "predicted enhancers". So is there any online softwares that have such function? Thanks for your help!

Try:
TF Seach at http://www.cbrc.jp/research/db/TFSEARCH.html
Cister (Cis element cluster finder) at http://zlab.bu.edu/~mfrith/cister.shtml
WWW promoter scan at http://www-bimas.cit.nih.gov/molbio/proscan/

These will work for general transcription factors like HNFs, Sp1, AP-1, NFkB, etc.
None that I am aware of predict binding of nuclear receptors etc.

Thanks~ but These tools are for predicting TF binding sites actually, yet I was asking about the other way, that is from known enhancers (databases) to the TFs that bind to them.

Dr Teeth on Mar 11 2009, 10:42 AM said: