I expected to see the position of CGs in the genome browser to coincide with the position of CpG methylation bars for
the "track hubs" http://genome.ucsc.edu/cgi-bin/hgHubConnect Roadmap Epigenomics Human Epigenome Atlas Release I, VizHub at Washington University in St. Louis hg18 The expectation was not met for CGs in the promoter of Sp1 gene (it workeed for a few region but not for others) For example, check the region chr12:52,060,198-52,060,258 for hg18 Also see the attached file (Checking_CpG_metylation_Nov_15_2011.pdf) the position of vertical blue bars do not coincide with the position of CG dinucleotides in the genome browser. Minou Bina Purdue University ----- Original Message ----- From: "Katrina Learned" <[email protected]> To: "Minou Bina" <[email protected]> Cc: [email protected] Sent: Thursday, November 17, 2011 7:48:12 PM Subject: Re: [Genome] new feature: Track Data Hubs Hi Minou, Can you please provide more information (via this mailing list: [email protected] ) as to what you are expecting to see and how the items you see differ from what you expect? Thank you, Katrina Learned UCSC Genome Bioinformatics Group On 11/15/11 11:21 AM, Minou Bina wrote: Hi Today, we encountered a problem with the "track hubs" http://genome.ucsc.edu/cgi-bin/hgHubConnect for displaying CpG methylation patterns For some regions, it worked For some regions, CpG did not match the position of methylation sites See the attached file Minou Bina Purdue University _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
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