5554a09d5cc142c5a01b4b4acc94f8900851ca9b
luvina
  Thu Jan 15 14:07:37 2015 -0800
added news announcement for CPTAC hub and PeptideAtlas track
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         <p>We are pleased to announce the release of the UCSC Genome Browser
         <A HREF = "https://www.youtube.com/channel/UCQnUJepyNOw0p8s2otX4RYQ/videos">YouTube
         channel</A>.  The channel contains short videos showing
         how to use the Genome Browser and associated tools to solve selected problems.  The
         videos were produced by Robert Kuhn and Pauline Fujita, with assistance from Luvina
         Guruvadoo, Jonathan Casper and the rest of the Browser staff.
         </p>
 
         <p>See also the other materials on our <a href = "training/">training page</a>.
 
         </p>
     -->
 	<hr>
 	<p>
+	<font face="courier" size="3"><b>15 January 2015 - 
+	Proteomics Data Now Available in Genome Browser</b></font>
+	<p>
+	We are pleased to announce the release of proteomics data for the 
+	human hg19 assembly. Data from the National Cancer Institute’s (NCI) 
+	<a href="http://proteomics.cancer.gov/programs/cptacnetwork" target="_blank">
+	Clinical Proteomic Tumor Analysis Consortium (CPTAC)</a> is now available 
+	in the UCSC Genome Browser as a public track hub. This track hub 
+	contains peptides that were identified by CPTAC in their deep mass 
+	spectrometry based characterization of the proteome content of 
+	breast, colorectal and ovarian cancer biospecimens that were initially 
+	sequenced by <a href="http://cancergenome.nih.gov/" target="_blank">
+	The Cancer Genome Atlas</a>. This effort extends the 
+	accessibility of CPTAC data to more researchers and provides an 
+	additional level of analysis to assist the cancer biology community.
+	<p>
+	To access and view this hub, navigate to the 
+	<a href="http://genome.ucsc.edu/cgi-bin/hgHubConnect" target="_blank">
+	Track Hub gateway page</a> and select “CPTAC Hub v1” from the Public Hubs list. 
+	Please direct any queries to the Fenyo Lab at <a href="mailto:info@fenyolab.org">.
+	<p>
+	In addition, we have also released a <a href="http://www.peptideatlas.org/" target="_blank">
+	PeptideAtlas</a> track which displays peptide identifications from the 
+	<a href="https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/buildDetails?atlas_build_id=433" target="_blank">
+	PeptideAtlas August 2014 (Build 433) Human build</a>. This build, based on 971 samples containing more than 420 
+	million spectra, identified over a million distinct peptides covering 
+	more than 15,000 canonical proteins. To read more about this track, 
+	please see the <a href="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=peptideAtlas" target="_blank">
+	track description page</a>. Many thanks to Eric Deutsch, 
+	Zhi Sun, and the PeptideAtlas team at the Institute for Systems Biology, 
+	Seattle for providing this data.
+	</p>        
+
+
+
+	<hr>
+        <p>
         <font face="courier" size="3"><b>19 December 2014 -
         New Cow (bosTau8) Assembly Now Available in the Genome Browser</b></font>
         <p>
         We are pleased to announce the release of a Genome Browser for the June 2014 assembly
         of cow, <i>Bos taurus</i> (Bos_taurus_UMD 3.1.1, UCSC version bosTau8). This updated cow assembly was 
 	provided by the  <a href="http://www.cbcb.umd.edu/"
         target="_blank">UMD Center for Bioinformatics and Computational Biology</a> (CBCB). This
 	assembly is an update to the previous UMD 3.1 (bosTau6) assembly.  UMD 3.1 contained 
 	138 unlocalized contigs that were found to be contaminants. 
 	These have been suppressed in UMD 3.1.1.
         <p>
         Bulk downloads of the sequence and annotation data are available via the Genome
         Browser
         <a href="ftp://hgdownload.cse.ucsc.edu/goldenPath/bosTau8/">FTP server</a>
         or the