facc0ec35e6e1243cf6519987d9684bf28f73669
mspeir
  Thu Jul 31 15:15:24 2014 -0700
Updating docs for rn6 release, refs #13578
diff --git src/hg/htdocs/indexNews.html src/hg/htdocs/indexNews.html
index 42a15a6..e24a565 100755
--- src/hg/htdocs/indexNews.html
+++ src/hg/htdocs/indexNews.html
@@ -14,113 +14,115 @@
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           <P>
           To receive announcements of new genome 
           assembly releases, new software features, updates and 
           training seminars by email, subscribe to the
           <A HREF="http://groups.google.com/a/soe.ucsc.edu/group/genome-announce?hl=en"
           TARGET=_blank>genome-announce</A> mailing list.</P>
 
     <!-- start news -->
         <hr>
-
-        <p>
-        <font face="courier" size="3"><b> 15 July 2014 -
-        New Shrew (sorAra2) Assembly Now Available in the Genome Browser</b>
+	<font face="courier" size="3"><b>30 July 2014 -
+	New Rat (rn6) Assembly Now Available in the Genome Browser</b>
         </font>
         </p>
         <p>
-        We are pleased to announce the release of a Genome Browser for the August 2008
-        assembly of shrew, <em>Sorex araneus</em> (Broad SorAra2.0, UCSC version
-        sorAra2). The whole genome shotgun assembly was provided by
-        <a href="http://www.broadinstitute.org/"
-        target="_blank">The Broad Institute</a>.
-        There are 12,845 scaffolds with a total size of 2,423,158,183 bases.
+	We are excited to announce the release of a Genome Browser for the July 2014 assembly
+	of rat, <em>Rattus norvegicus</em> (RGSC Rnor_6.0, UCSC version rn6)! This
+	assembly is provided by the Rat Genome Sequencing Consortium, which is comprised of
+	eight research organizations across the United States and Canada and led by the
+	<a href="https://www.hgsc.bcm.edu/" target="_blank">Baylor College of Medicine</a>.
+	The new RGSC Rnor_6.0 assembly contains a new, partially assembled Y chromosome
+	as well as improvements to other regions of the genome. You can find more information
+	on the RGSC's efforts to sequence rat genome on the Baylor College of Medicine's
+	<a href="https://www.hgsc.bcm.edu/other-mammals/rat-genome-project"
+	target="_blank">project page</a>.
 	</p>
 	<p>
         Bulk downloads of the sequence and annotation data are available via the Genome
         Browser
-        <a href="ftp://hgdownload.cse.ucsc.edu/goldenPath/sorAra2/">FTP server</a>
+        <a href="ftp://hgdownload.cse.ucsc.edu/goldenPath/rn6/">FTP server</a>
         or the
-        <a href="http://hgdownload.cse.ucsc.edu/downloads.html#shrew">Downloads</a>
+        <a href="http://hgdownload.cse.ucsc.edu/downloads.html#rat">Downloads</a>
         page. These data have
-        <a href="/goldenPath/credits.html#shrew_credits">specific conditions for use</a>.
-        The shrew (sorAra2) browser annotation tracks were generated by UCSC and
+        <a href="../goldenPath/credits.html#rat_use">specific conditions for use</a>.
+        The rat (rn6) browser annotation tracks were generated by UCSC and
         collaborators worldwide. See the
-        <a href="/goldenPath/credits.html#shrew_credits">Credits</a> page for a detailed
+        <a href="../goldenPath/credits.html#rat_credits">Credits</a> page for a detailed
         list of the organizations and individuals who contributed to this release.
         </p>
 
         <hr>
-
         <p>
         <font face="courier" size="3"><b> 15 July 2014 -
-        New Pika (ochPri3) Assembly Now Available in the Genome Browser</b>
+        New Shrew (sorAra2) Assembly Now Available in the Genome Browser</b>
         </font>
         </p>
         <p>
-        We are pleased to announce the release of a Genome Browser for the May 2012
-        assembly of pika, <em>Ochotona princeps</em> (Broad OchPri3.0, UCSC version
-        ochPri3). The whole genome shotgun assembly was provided by
+        We are pleased to announce the release of a Genome Browser for the August 2008
+        assembly of shrew, <em>Sorex araneus</em> (Broad SorAra2.0, UCSC version
+        sorAra2). The whole genome shotgun assembly was provided by
         <a href="http://www.broadinstitute.org/"
         target="_blank">The Broad Institute</a>.
-        There are 10,420 scaffolds with a total size of 2,229,835,716 bases.
+        There are 12,845 scaffolds with a total size of 2,423,158,183 bases.
         </p>
         <p>
         Bulk downloads of the sequence and annotation data are available via the Genome
         Browser
-        <a href="ftp://hgdownload.cse.ucsc.edu/goldenPath/ochPri3/">FTP server</a>
+        <a href="ftp://hgdownload.cse.ucsc.edu/goldenPath/sorAra2/">FTP server</a>
         or the
-        <a href="http://hgdownload.cse.ucsc.edu/downloads.html#pika">Downloads</a>
+        <a href="http://hgdownload.cse.ucsc.edu/downloads.html#shrew">Downloads</a>
         page. These data have
-        <a href="/goldenPath/credits.html#pika_credits">specific conditions for use</a>.
-        The pika (ochPri3) browser annotation tracks were generated by UCSC and
+        <a href="/goldenPath/credits.html#shrew_credits">specific conditions for use</a>.
+        The shrew (sorAra2) browser annotation tracks were generated by UCSC and
         collaborators worldwide. See the
-        <a href="/goldenPath/credits.html#pika_credits">Credits</a> page for a detailed
+        <a href="/goldenPath/credits.html#shrew_credits">Credits</a> page for a detailed
         list of the organizations and individuals who contributed to this release.
         </p>
 
         <hr>
 
         <!-- staged for archive use.  NOTE: condense header line from .... </b></font><p> to </b>: </font>
 
 	<p>
+	<font face="courier" size="3"><b>30 July 2014 -
+        New Rat (rn6) Assembly Now Available in the Genome Browser</b>:</font>
+        We are excited to announce the release of a Genome Browser for the July 2014 assembly
+        of rat, <em>Rattus norvegicus</em> (RGSC Rnor_6.0, UCSC version rn6)!
+	</p>
+
+        <p>
         <font face="courier" size="3"><b> 15 July 2014 -
         New Shrew (sorAra2) Assembly Now Available in the Genome Browser</b>: </font>
         We are pleased to announce the release of a Genome Browser for the August 2008
         assembly of shrew, <em>Sorex araneus</em> (Broad SorAra2.0, UCSC version
         sorAra2). <a href="goldenPath/newsarch.html#071514">Read more</a>.
         </p>
+                -->
+
+        <!-- start archives -->
 
         <p>
         <font face="courier" size="3"><b> 15 July 2014 -
         New Pika (ochPri3) Assembly Now Available in the Genome Browser</b>: </font>
         We are pleased to announce the release of a Genome Browser for the May 2012
         assembly of pika, <em>Ochotona princeps</em> (Broad OchPri3.0, UCSC version
         ochPri3). <a href="goldenPath/newsarch.html#071514">Read more</a>.
         </p>
-                -->
 
-        <!-- start archives -->
 
 	<p>
         <font face="courier" size="3"><b> 19 June 2014 -
         Conservation Track Released for Rat (rn5)</b>: </font>
         We have released a new Conservation track based on the rat (rn5) assembly.
         <a href="goldenPath/newsarch.html#061914">Read more</a>.
 	</p>
 
-	<p>
-	<font face="courier" size="3"><b> 30 May 2014 -
-	New Human Variation Track Now Available</b>: </font>
-        We are pleased to announce the release of the new Exome Variant Server (EVS) Variants track.
-        <a href="goldenPath/newsarch.html#053014">Read more</a>.
-	</p>
-
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