Hi Jacob, The data you are referring to was not submitted by UCSC which means that UCSC doesn't have the all data referenced in the GEO Series and paper. To better understand the data the paper is referring to we suggest that you contact the submitter of the samples to GEO, which can be found on the GEO Series Page (http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE26386) or contact the corresponding author of the paper.
We hope that this helps you to find the answers you are looking for. If you have further questions about data on our site, please don't hesitate in contacting the mailing list: [email protected]. Vanessa Kirkup Swing UCSC Genome Bioinformatics Group ---------- Forwarded message ---------- From: Jacob Biesinger <[email protected]> Date: Tue, Oct 18, 2011 at 7:18 PM Subject: Re: [Genome] Encode data for HeLa-S3 H3k4me1 missing? To: [email protected] Same issue: The data for HepG2 H3K4me1 is missing and GEO only has the BED alignments (not BAM)... -- Jake Biesinger Graduate Student Xie Lab, UC Irvine On Tue, Oct 18, 2011 at 1:42 PM, Jacob Biesinger <[email protected]>wrote: > Scratch that. H1 is embryonic stem cells and HeLa cells were not included > in the paper. Sorry for the noise! > > -- > Jake Biesinger > Graduate Student > Xie Lab, UC Irvine > > > > On Tue, Oct 18, 2011 at 1:11 PM, Jacob Biesinger <[email protected] > > wrote: > >> Hi! >> >> Looking at >> http://genome.ucsc.edu/cgi-bin/hgFileUi?db=hg19&g=wgEncodeBroadHistone >> and >> http://hgdownload.cse.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeBroadHistone/it >> appears that the H3k4me1 data is missing for HeLa cells, but is referenced >> as being present in the recent chromatin marks paper >> http://www.nature.com/nature/journal/v473/n7345/full/nature09906.html >> >> Is this data not part of the data freeze? The data is available over at >> GEO but it looks like it's referenced under H1 instead of Helas. Is this >> accurate? >> -- >> Jake Biesinger >> Graduate Student >> Xie Lab, UC Irvine >> >> > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
