Hey Bram, I can confirm that at least three of these cell types are from a female, and that we are distributing regions on the Y chromosome for datasets built from these types. Up until very recently our acceptance of ENCODE alignment data did not cross reference sex with the presence of Y chromosome data, but we will be checking for this in new datasets.
You may want to pursue this question with the lab that submitted the data. Contact information for them is on the detail page for the Methyl-seq track which you can find here: http://hgwdev-braney.cse.ucsc.edu/cgi-bin/hgTrackUi?db=hg18&g=wgEncodeHudsonalphaMethylSeq Brian Raney <http://hgwdev-braney.cse.ucsc.edu/cgi-bin/hgTrackUi?db=hg18&g=wgEncodeHudsonalphaMethylSeq> On Thu, Feb 11, 2010 at 12:32 AM, Bram Bekaert < [email protected]> wrote: > Hi, > > Browsing through the ENCODE HudsonAlpha Methyl-seq data track on the Y > chromosome I noticed you have released data on four cell lines (GM12878, > H9ES, HAL and K562). I'm probably doing something wrong but can you explain > to me how GM12878 has Y-chromosome methylation data if the donor for the > cell line was female? > > Best regards, > > Bram Bekaert > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
