No, you are spot on. So you mean that at best, we can narrow down to potential sites?
Cheers. On 08/01/2008, Maximilian Haeussler <[EMAIL PROTECTED]> wrote: > > Do you know to which transcription factor class this proteins belongs to? > They often bind to very similar / identical binding sites. > If you scan for with Interpro and do some research on pubmed about this > class (main classes: zinc finger, hemeobox, H2H, etc and their > subclasses), > while keeping an eye on Transfac and Jaspar, you should come up with an > idea > of the binding sites of your protein. > You can still do EMSAs afterwards... > > But perhaps I've misunderstood the question... > > cheers, > Max > > On 06/01/2008, Donnie Darko <[EMAIL PROTECTED]> wrote: > > > > Hi folks, > > > > Suppose I have a novel gene whose product is a DNA binding protein, how > > would I go about locating potential binding sites where this protein > could > > bind? I'm only interested in finding sites for this specific protein and > > not > > a general scan of tfbs. > > > > I've extracted upstream sequences of genes that I'm interested in but I > > can't think of a way forward. > > > > Cheers and belated happy new year :-P > > _______________________________________________ > > BBB mailing list > > [email protected] > > http://www.bioinformatics.org/mailman/listinfo/bbb > > > > > > -- > Maximilian Haeussler, > skype: maximilianhaeussler > office: +33 1 69 82 41 29 > _______________________________________________ > BBB mailing list > [email protected] > http://www.bioinformatics.org/mailman/listinfo/bbb > _______________________________________________ BBB mailing list [email protected] http://www.bioinformatics.org/mailman/listinfo/bbb
