e6a4923b3fd4bfe5f94afc5637f917a2b18ff440
mspeir
  Wed Jan 22 16:52:40 2014 -0800
Adding Web sequences track announcement, refs #12212
diff --git src/hg/htdocs/indexNews.html src/hg/htdocs/indexNews.html
index c5df16f..fc8a294 100755
--- src/hg/htdocs/indexNews.html
+++ src/hg/htdocs/indexNews.html
@@ -1,127 +1,118 @@
 <!-- News Section ============================================- -->  
 <TABLE WIDTH="100%" BGCOLOR="#888888" BORDER="0" CELLSPACING="0" CELLPADDING="1">
     <TR><TD>        
     <TABLE BGCOLOR="#fffee8" WIDTH="100%"  BORDER="0" CELLSPACING="0" CELLPADDING="0">
         <TR><TD>        
         <TABLE BGCOLOR="#D9E4F8" BACKGROUND="images/hr.gif" WIDTH="100%" BORDER=0>
             <TR><TD>
             <!--cheap trick to get background on row to be continuous-->
             <TABLE CELLPADDING=0 CELLSPACING=0 WIDTH="100%">
                 <TR><TD ALIGN="left">
                  <font size="4"><a name="TOC"></a><b>&nbsp; News</b></font><a href="http://www.twitter.com/GenomeBrowser" target="_blank"><img src="http://twitter-badges.s3.amazonaws.com/t_small-a.png" alt="Follow GenomeBrowser on Twitter" style="vertical-align:text-bottom; margin-left: 15px;"></a></TD>
                 <TD ALIGN="right"><A HREF="goldenPath/newsarch.html"><IMG 
                 SRC="images/news.jpg" ALT="" ALIGN="right" BORDER=0></A>
             </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="http://groups.google.com/a/soe.ucsc.edu/group/genome-announce?hl=en"
           TARGET=_blank>genome-announce</A> mailing list.</P>
 
     <!-- start news -->
         <p>
+        <font face="courier" size="3"><b>22 January 2014 -
+        Web Sequences Track now available for hg19 and other assemblies</b></font>
+        </p>
+        <p>
+        We're pleased to announce the release of the Web Sequences track on the UCSC Genome Browser. This 
+ 	track, produced in collaboration with Microsoft Research, contains the results of a 30-day scan for 
+	DNA sequences from over 40 billion different webpages. The sequences were then mapped with Blat to 
+	the human genome (hg19) and numerous other species including mouse (mm9), rat (rn4), and zebrafish 
+	(danRer7). The data were extracted from a variety of sources including patents, online textbooks, 
+	help forums, and any other webpages that contain DNA sequence. In essence, this track displays the 
+	Blat alignments of nearly every DNA sequence on the internet! The 
+	<A HREF="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=pubsBingBlat">Web Sequences</A> 
+	track description page contains more details on how the track was generated.
+        </p>
+        <p>
+        We would like to acknowledge Max Haussler and Matt Speir from the UCSC Genome Browser staff
+        and Bob Davidson from Microsoft Research for their hard work in creating this track.
+        </p>
+
+        <p>
         <font face="courier" size="3"><b>14 January 2014 -
         Two E. coli comparative assembly hubs now available</b></font>
         </p>
         <p>
         We're pleased to add two new assembly hubs produced by the UCSC
         <A HREF="https://cbse.soe.ucsc.edu/hausslerlab" TARGET="_BLANK">David Haussler lab</A> 
         to our collection of publicly available hubs. The new hubs feature over 60 bacterial assemblies, 
         including more than 55 different E. coli strains. The assembly annotations include genes, pathogenic
         genes, conservation, GC percent, repetitive elements and much more.
         </p>
         <p>
         These hubs focus on comparative genomics and showcase the new "snake" track type. Snakes, which
         visualize alignments from
         <A HREF="http://genome.ucsc.edu/FAQ/FAQformat.html#format20">Hierarchical Alignment</A>
         (HAL) files, provide a way to view sets of pairwise gapless alignments that may overlap on both
         the chosen genome (reference) and the query genome, and show various types of genomic variations
         such as insertions, substitutions, and duplications. More details about the new snake track display
         and its configuration options can be found on our Genome Browser
         <a href="http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html" target="_blank">help</a> page.
         </p>
         <p>
         To access and view these hubs, navigate to the
         <A HREF="http://genome.ucsc.edu/cgi-bin/hgHubConnect">Track Hub gateway page</A>
         and select one of the two E. coli comparative assembly hubs from the Public Hubs list.
         </p>
         <p>
         We would like to acknowledge Ngan Nguyen, Glenn Hickey, Brian Raney, Joel Armstrong, Benedict Paten,
         Matt Speir, and Luvina Guruvadoo for their hard work in creating these hubs. 
         </p>
         <hr>
 
+        <!-- staged for archive use
         <p>
-        <font face="courier" size="3"><b>27 November 2013 -
-        100 Species Conservation Track now available on hg19</b></font>
-        </p>
-        <p>
-        After 15.4 years of CPU run-time in 9,905,594 individual 'jobs' and 99 cluster runs for lastz 
-        pair-wise alignment...we are excited to announce the release of a 100 species alignment on the 
-        hg19/GRCh37 human Genome Browser.
-        </p>
-        <p>
-        This new Conservation track shows multiple alignments of 100 species and measurements of 
-        evolutionary conservation using two methods (phastCons and phyloP) from the PHAST package. 
-        This adds 40 more species to the existing 60-way on the mm10 mouse browser. For more information 
-        about the 100 species Conservation track, see its 
-        <a href="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=cons100way" target="_blank">description page</a>.
+        <font face="courier" size="3"><b>22 January 2014 -
+        Web Sequences Track now available for hg19 and other assemblies</b></font>
         </p>
         <p>
-        We'd also like to acknowledge the hard work of the UCSC Genome Browser staff who pulled together 
-        the information for this track: Hiram Clawson and Pauline Fujita.
+        We're pleased to announce the release of the Web Sequences track on the UCSC Genome Browser. This
+        track, produced in collaboration with Microsoft Research, contains the results of a 30-day scan for
+        DNA sequences from over 40 billion different webpages.
+        <a href="goldenPath/newsarch.html#011414">Read more</a> 
         </p>
 
-        <!-- staged for archive use
         <p>
         <font face="courier" size="3"><b>14 January 2014 -
         Two E. coli comparative assembly hubs now available</b></font>
         We're pleased to add two new assembly hubs produced by the UCSC
         <A HREF="https://cbse.soe.ucsc.edu/hausslerlab" TARGET="_BLANK">David Haussler lab</A> 
         to our collection of publicly available hubs.
         <a href="goldenPath/newsarch.html#011414">Read more</a> 
         </p>
 
+        -->
+
+        <!-- start archives -->
         <p>
         <font face="courier" size="3"><b>27 November 2013 -
         100 Species Conservation Track now available on hg19</b></font>
         </p>
        
         <p>
         We're happy to announce the release of a new track on the hg19/GRCh37 human Genome Browser. 
         The new Conservation track shows multiple alignments of 100 species and measurements of 
         evolutionary conservation using two methods (phastCons and phyloP) from the PHAST package. 
         </p>
-        -->
-
-        <!-- start archives -->
-        <hr>
-        <p>
-        <font face="courier" size="3"><b>24 October 2013 -
-        Job Opening: UCSC Genome Browser Trainer</b></font>
-	The <a href="http://cbse.ucsc.edu/" target="_blank">Center for Biomolecular Science
-	and Engineering</a> (CBSE) at University of California Santa Cruz
-	seeks an articulate, self-motivated educator for the two-year position of UCSC Genome
-	Browser trainer. 
-        <a href="goldenPath/newsarch.html#102413">Read more</a>.
-        </p>
-        
-        <p>
-        <font face="courier" size="3"><b>23 October 2013 -
-        dbSNP 138 Available for hg19: </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 138
- 	data, available on the human assembly (GRCh37/hg19). 
-        <a href="goldenPath/newsarch.html#102313">Read more</a>.
-        </p>
 
             </TD><TD WIDTH=15>
          </TD></TR></TABLE>
     <BR></TD></TR></TABLE>
 </TD></TR></TABLE>