Hi Mike, I searched for a gene (hras) and wanted to see transcription factor binding sites upstream of the gene. Hence,
1. I added regulation tracks such as TFBS conserved, Yale TFBS. 2. zoomed out 3x so that I go to upstream sequence 3. tried to download Tables to get information about which TF and their binding site locations If this is not correct way to what I am trying to do, let me know. If this is the correct way, how do I download TFBS information for any gene? Thanks, Medha > -----Original Message----- > From: [email protected] [mailto:[email protected]] On Behalf Of > Michael Pheasant > Sent: Friday, August 14, 2009 1:49 PM > To: Bhagwat, Medha (NIH/OD/ORS) [E] > Cc: [email protected] > Subject: Re: [Genome] Table download > > Hi Medha > > I have a few questions for you; > > *) what track(s) are you trying to download? > - all "wgEncodeYaleChIPseqPeaks*", or some subset of peaks, or > something else? > - when I look at that region I see only one peak for HeLa Pol2 > > *) When you say you 'dont get the info' do you mean you get an page > containing just the following text, or something else?: > > #bin chrom chromStart chromEnd name score strand > signalValue > pValue qValue peak > # No results in given region. > > Cheers, > > Mike > > > On Fri, Aug 14, 2009 at 7:41 AM, Bhagwat, Medha (NIH/OD/ORS) > [E]<[email protected]> wrote: > > Hi, > > > > I am going through UCSC browser and trying to download transcription > factor binding sites information as Tables but not getting anywhere. > > > > I started with > > > > http://genome.ucsc.edu/cgi-bin/hgTracks?position=chr11:523712- > 524079&hgsid=139544794&wgEncodeYaleChIPseq=dense > > > > and then went to Tables to download, changed the group to regulation > but don't get the info. > > > > Obviously there is some other way. Can you help? > > > > Thanks, > > > > Medha Bhagwat > > NIH > > > > > > > > _______________________________________________ > > Genome maillist - [email protected] > > https://lists.soe.ucsc.edu/mailman/listinfo/genome > > > > > > -- > Michael Pheasant > Associate Project Scientist > UCSC Genome Browser > > Email: [email protected] > Skype: mpheasant > Phone: +1-831-459-1424 > > Location: Engineering2 Room 515 > Post: CBSE, UC Santa Cruz, MS:CBSE/ITI > 1156 High Street > Santa Cruz, CA 95064, USA _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
