43384a0e1a00504f91d63ea17efa6d539508e2f8 luvina Tue Jan 3 10:42:52 2012 -0800 Added announcement for Epi Road Map in DHs, redmine #6425 diff --git src/hg/htdocs/indexNews.html src/hg/htdocs/indexNews.html index bb905a6..b9adc4b 100644 --- src/hg/htdocs/indexNews.html +++ src/hg/htdocs/indexNews.html @@ -14,30 +14,65 @@ </TD></TR></TABLE> </TD></TR></TABLE> <TABLE BGCOLOR="#fffee8" WIDTH="100%" CELLPADDING=0> <TR><TH HEIGHT=3></TH></TR> <TR><TD WIDTH=10></TD> <TD> <P> To receive announcements of new genome assembly releases, new software features, updates and training seminars by email, subscribe to the <A HREF="https://lists.soe.ucsc.edu/mailman/listinfo/genome-announce" TARGET=_blank>genome-announce</A> mailing list.</P> <!-- start news --> + + <FONT FACE="courier" SIZE="3"><B>3 January 2012 - Roadmap + Epigenomics Now Available through Data Hub at Washington + University</B></FONT> + <P> + We are pleased to announce the release of the Roadmap + Epigenomics data on the UCSC Genome Browser through our + Data Hub function. The Roadmap Epigenomics Project is part + of the The NIH's <a href="https://commonfund.nih.gov/epigenomics/" + target="_blank">Common Fund's Epigenomics Program</a>. + It was launched with the goal of producing a public resource + of human epigenomic data to catalyze basic biology + and disease-oriented research. The Consortium leverages + experimental pipelines built around next-generation sequencing + technologies to map DNA methylation, histone modifications, + chromatin accessibility and small RNA transcripts in stem + cells and primary ex vivo tissues selected to represent the + normal counterparts of tissues and organ systems frequently + involved in human disease. The Consortium expects to deliver + a collection of normal epigenomes that will provide a framework + or reference for comparison and integration within a broad + array of future studies. + <P> + All data were produced and processed by the + <a href="http://www.roadmapepigenomics.org/" target="_blank"> + Roadmap Epigenomics Mapping Consortium</a>, and will be periodically + updated. Genome Browser tracks were constructed and hosted by + <a href="http://vizhub.wustl.edu/" + target="_blank">VizHub</a> at Washington University in St. Louis. + Tracks are available at UCSC Genome Browser via the Data Hub + function, or follow this + <a href="http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg19&hubUrl= + http://vizhub.wustl.edu/VizHub/RoadmapRelease4.txt" target="_blank">link</a>. + The Reference Epigenome Mapping Consortium is responsible for the quality of the data. + <P> <FONT FACE="courier" SIZE="3"><B>19 December 2011 - Variant Call Format (VCF) Now Supported in Genome Browser</B></FONT> <P> We are pleased to announce that the UCSC Genome Browser now supports Variant Call Format (VCF). VCF is a flexible and extendable line-oriented text format developed by the 1000 Genomes Project for releases of single nucleotide variants, indels, copy number variants and structural variants discovered by the project. Similar to bigBed, bigWig and BAM, the Browser transfers only the portions of VCF files necessary to display viewed regions, making VCF a fast and attractive option for large data sets. VCF files will need to be compressed and indexed using the tabix package available from <a href="http://samtools.sourceforge.net/" target="_blank">SAMtools</a>. This new format is available