Hi Ken, As my colleague mentioned below, the hg18 version of this track had many issues, which is probably why you are noticing differences in the signals. Please use the hg19 version for your analysis.
Feel free to contact us again at [email protected] if you have any further questions. --- Luvina Guruvadoo UCSC Genome Bioinformatics Group On 1/12/2012 12:33 PM, Kenichi Tamama wrote: > Hi Katrina, > > Thank you for your response. I compared the HAIB TFBS data in hg19 with the > ones in hg18 and noticed that the overall signals look way weaker in hg19 > than in 18, as if totally different data sets..... > > Ken > > -----Original Message----- > From: Katrina Learned [mailto:[email protected]] > Sent: Wednesday, January 11, 2012 8:46 PM > To: Kenichi Tamama > Cc: [email protected] > Subject: Re: [Genome] HAIB TFBS > > Hi Ken, > > The hg18 version of the HAIB TFBS track had many issues, and so a decision > was made to abandon the hg18 version and focus the hg19 version of the > track. If you are interested in the HAIB TFBS, please use the > hg19 version, which is available on the hg19 genome browser. > > On hg19, the HAIB TFBS track is grouped within a super-track called "ENC TF > Binding." Under the browser image, scroll down to the Regulation group, > click on "ENC TF Binding" and then click on "HAIB TFBS." From here you can > control which data you want to display in the browser and read about the > data. For your convenience, here is a direct link to the track controls and > description: > genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeHaibTfbs > > As you mentioned, the hg19 HAIB TFBS data is also downloadable here: > http://genome.ucsc.edu/cgi-bin/hgFileUi?db=hg19&g=wgEncodeHaibTfbs > > Please contact the mail list ([email protected]) again if you have any > further questions. > > Katrina Learned > UCSC Genome Bioinformatics Group > > > > On 1/10/12 4:35 PM, Kenichi Tamama wrote: >> Hi, >> >> >> >> I just noticed that HAIB TFBS is no longer accessible from hg18. The >> web site states "THIS DATA HAS BEEN REVOKED. THIS TRACK IS NO LONGER >> BEING MAINTAINED. For updated data and information, please see the hg19 > track:" >> >> >> 1: What has been going on? >> >> >> 2: Those data still seem to be downloadable at >> <http://genome.ucsc.edu/cgi-bin/hgFileUi?db=hg19&g=wgEncodeHaibTfbs> >> >> >> >> but I have no idea how to browse these data. Could you please advise? >> >> >> >> 3: Will these datasets be browsable in the genome browser (hg19) in >> the near future? >> >> >> >> Thanks very much. >> >> >> >> Ken Tamama >> >> University of Pittsburgh >> >> _______________________________________________ >> Genome maillist - [email protected] >> https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
