40b48f0ef587dc61afdfbfa47025272f3c08fb9b
luvina
  Fri Dec 19 14:41:08 2014 -0800
adding news announcement for bosTau8
diff --git src/hg/htdocs/indexNews.html src/hg/htdocs/indexNews.html
index 588b6d3..9212013 100755
--- src/hg/htdocs/indexNews.html
+++ src/hg/htdocs/indexNews.html
@@ -37,114 +37,107 @@
 
     <!-- start news -->
 
     <!-- staged announcemnt for YouTube 
 	<hr>
         <p>
         <font face="courier" size="3"><b>19 December 2014 - Genome Browser YouTube Channel</b></font>
 
         <p>We are pleased to announce the release of the UCSC Genome Browser
         <A HREF = "">YouTube channel</A>.  The channel contains short how-to 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
         Guruvadu, Jonathan Caspar and the rest of the Browser staff.
         </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
+        <a href="http://hgdownload.cse.ucsc.edu/downloads.html#cow">Downloads</a>
+        page. These data have
+        <a href="/goldenPath/credits.html#cow_credits">specific conditions for use</a>.
+        The cow browser annotation tracks were generated by UCSC and
+        collaborators worldwide. See the
+        <a href="/goldenPath/credits.html#cow_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>12 December 2014 -
         New <i>D. melanogaster</i> (dm6) Assembly Now Available in the Genome Browser</b></font>
         <p>
 	We are pleased to announce the release of a Genome Browser for the August 2014 assembly
         of <i>Drosophila melanogaster</i> (BDGP Release 6, UCSC version dm6). This updated <i>D.
 	melanogaster</i> assembly was provided by the  <a href="http://www.fruitfly.org/"
         target="_blank">Berkeley Drosophila Genome Project</a> (BDGP). Please see
 	<a href="http://flybase.org/static_pages/feature/previous/articles/2014_07/FB2014_04.html"
 	target="_blank">this announcement</a> on the FlyBase website for more details about this
 	updated <i>D. melanogaster</i> assembly.
 	<p>
 	Bulk downloads of the sequence and annotation data are available via the Genome
         Browser
         <a href="ftp://hgdownload.cse.ucsc.edu/goldenPath/dm6/">FTP server</a>
         or the
         <a href="http://hgdownload.cse.ucsc.edu/downloads.html#fruitfly">Downloads</a>
         page. These data have
         <a href="/goldenPath/credits.html#dm_credits">specific conditions for use</a>.
         The <i>D. melanogaster</i> (dm6) browser annotation tracks were generated by UCSC and
         collaborators worldwide. See the
         <a href="/goldenPath/credits.html#dm_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>29 October 2014 -
-        Genome Browser in a Box (GBiB)</b></font>
-        <p>
-	Sometimes you just want to keep your genomics data to yourself. Have you ever 
-	hesitated when uploading your data set into the UCSC Genome Browser? If so, 
-	you'll be happy to know that we have created a stand-alone personal version: 
-	Genome Browser in a Box (GBiB). If you have sensitive genomics data that you 
-	would like to view securely on your own laptop in the context of the UCSC 
-	Genome Browser, GBiB is for you.
-	<p>
-	GBiB is an easy-to-install personal copy of the Genome Browser that comes 
-	preloaded with the most popular annotation tracks for human. It is highly 
-	configurable &mdash; you can access or download other annotation tracks of 
-	interest, or view any of the other 90+ organisms featured in the public 
-	Genome Browser. GBiB runs inside of Oracle's free VirtualBox virtual machine. 
-	It has the same core functionality as the UCSC Genome Browser, but keeps your 
-	data private and local to your own computer.
-	<p>
-	GBiB is free for non-commercial use by non-profit organizations, academic 
-	institutions, and for personal use. Commercial use requires purchase of a 
-	license with setup fee and annual payment. Download or purchase GBiB in
-	our secure online <a href="https://genome-store.ucsc.edu/">store</a>.
-	<p>
-	You can read more about GBiB on our 
-	<a href="http://genome.ucsc.edu/blog/genome-browser-in-a-box-gbib-origins/">
-	blog</a>, or in the <a href="/goldenPath/help/gbib.html">
-	help doc</a>.
-
-        <hr>
-        <!-- staged for archive use.  NOTE: condense header line from .... </b></font><p> to </b>: </font>
 
 	<p>
         <font face="courier" size="3"><b>12 December 2014 -
         New <i>D. melanogaster</i> (dm6) Assembly Now Available in the Genome Browser</b>: </font>
         We are pleased to announce the release of a Genome Browser for the August 2014 assembly
         of <i>Drosophila melanogaster</i> (BDGP Release 6, UCSC version dm6).
 	<a href="goldenPath/newsarch.html#121214">Read more</a>.
 	</p>
 
 	<p>
         <font face="courier" size="3"><b>29 October 2014 -
         Genome Browser in a Box (GBiB)</b>: </font>
 	GBiB is an easy-to-install personal copy of the Genome Browser that comes
         preloaded with the most popular annotation tracks for human.
 	<a href="goldenPath/newsarch.html#102914">Read more</a>.
         </p> -->
 
         <!-- start archives -->
 
  	<p>
+        <font face="courier" size="3"><b>29 October 2014 -
+        Genome Browser in a Box (GBiB)</b></font>
+        <p>
+        Sometimes you just want to keep your genomics data to yourself. Have you ever
+        hesitated when uploading your data set into the UCSC Genome Browser? If so,
+        you'll be happy to know that we have created a stand-alone personal version:
+        Genome Browser in a Box (GBiB).<a href="goldenPath/newsarch.html#102914">Read more</a>.
+
+	<p>
         <font face="courier" size="3"><b>20 October 2014 -
         dbSNP 141 Available for hg19 and hg38</b>: </font>
         We are pleased to announce the release of four tracks derived from NCBI
         <a href="http://www.ncbi.nlm.nih.gov/SNP/" target="_blank">dbSNP</a> Build 141
         data, available on the two most recent human assemblies GRCh37/hg19 and GRCh38/hg38.
         <a href="goldenPath/newsarch.html#102014">Read more</a>.
 	</p>
 
-        <p>
-        <font face="courier" size="3"><b>07 October 2014 -
-        Introducing the UCSC Genome Browser Blog</b>: </font>
-        We're excited to introduce a new
-        <a href="http://genome.ucsc.edu/blog" target="_blank">blog</a> that will feature posts by
-        Genome Browser staff and guests.
-        <a href="goldenPath/newsarch.html#100714">Read more</a>.
-        </p>
-	
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