Yes, that is correct. The T-47D cell line is only found in tracks released on hg19.
Please contact us again at [email protected] if you have any further questions. --- Steve Heitner UCSC Genome Bioinformatics Group From: [email protected] [mailto:[email protected]] On Behalf Of FindMyRoom Sent: Wednesday, June 20, 2012 12:00 PM To: [email protected] Cc: Greg Roe; [email protected] Subject: Re: [Genome] For T47D histone modification data: Thanks, Steve, It seems like only HG19 contains T-47D files, not in HG18, right? Sincerely, Ben On Wed, Jun 20, 2012 at 2:05 PM, Steve Heitner <[email protected]> wrote: Hello. The track that contains the data you are interested in is the ENCODE HudsonAlpha Transcription Factor Binding Sites track (http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19 <http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeHaibTfbs> &g=wgEncodeHaibTfbs). You can find the list of downloadable files at http://genome.ucsc.edu/cgi-bin/hgFileUi?db=hg19 <http://genome.ucsc.edu/cgi-bin/hgFileUi?db=hg19&g=wgEncodeHaibTfbs> &g=wgEncodeHaibTfbs. To list only the T-47D files, click the "Cell Line" box, check the "T-47D" checkbox and then click the "close" button at the bottom of that menu. Click any "Download" button in the leftmost column to download the corresponding file. In the future, you can locate tracks of interest to you by using our track search feature. The following is an example of how to locate T-47D ChIP-seq tracks: 1. Go to http://genome.ucsc.edu/cgi-bin/hgGateway 2. Click the "track search" button just under the clade/genome/assembly drop-down lists 3. Click the "Advanced" tab 4. On the "Cell, tissue or DNA sample" line, click the text box and check the "T-47D" checkbox 5. On the "Antibody or target protein" line, click the drop-down box and change "Antibody or target protein" to "Experiment (Assay) type" 6. Click the text box on that same line and check the "ChIP-seq" checkbox 7. Click the "search" button Any tracks containing the information you specified will be listed in the search results. To view those tracks, simply click the checkbox to the left of the corresponding result and then click the "View in Browser" button. Please contact us again at [email protected] if you have any further questions. --- Steve Heitner UCSC Genome Bioinformatics Group -----Original Message----- From: [email protected] [mailto:[email protected]] On Behalf Of FindMyRoom Sent: Tuesday, June 19, 2012 3:52 PM To: Greg Roe Cc: [email protected] Subject: Re: [Genome] For T47D histone modification data: *Hi Greg Would you please send me the links for BED or fastq format for these cell lines? Many thanks. * On Tue, Jun 19, 2012 at 5:42 PM, Greg Roe <[email protected]> wrote: > Hi, > > We do have Chip-Seq data for this cell line, but unfortunately, not > Histone modifications. Sorry. > > If you have any additional questions, please reply to: > [email protected] > - > Greg Roe > UCSC Genome Bioinformatics Group > > > On 6/18/12 12:47 PM, FindMyRoom wrote: > >> *Hello everyone, >> >> >> I am searching for T47D histone modification ChIP-seq data, do you >> have any link or data source? >> >> Many thanks. >> >> >> * >> ______________________________**_________________ >> Genome maillist - [email protected] >> https://lists.soe.ucsc.edu/**mailman/listinfo/genome<https://lists.so >> e.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
