2e2d7dbfb9f1a45c9c2d2058ec4f772b415ae712 donnak Thu Aug 16 16:00:46 2012 -0700 Added news item on Medium ground finch and archived some items. diff --git src/hg/htdocs/indexNews.html src/hg/htdocs/indexNews.html index 9cdb4e1..ad6f50e 100755 --- src/hg/htdocs/indexNews.html +++ src/hg/htdocs/indexNews.html @@ -1,112 +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> 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 --> + <font face="courier" size="3"><b>16 August 2012 - +Announcing a Genome Browser for the Medium ground finch </b></font> + <p> + We have released a browser for the Medium ground finch, + <em>Geospiza fortis</em>, reknowned as one of naturalist Charles + Darwin's Galapagos finches. This species, which has been the + subject of many evolutionary studies, is one of a group of + birds that evolved over a few million years from a single + ancestral species into multiple species whose beak sizes and + shapes are specialized for using different food resources. The + phenotypic diversity of these birds contributed to Darwin's + theory of evolution. The significance of this genome assembly is + described in the August 16, 2012, + <a href="https://cbse.soe.ucsc.edu/news/article/1939" + target=_blank>press release</a> issued by the UCSC Center for + Biomolecular Science and Engineering (CBSE). + </p> + <p> + The initial Medium ground finch genome assembly (GeoFor_1.0, + UCSC version geoFor1) is the product of a collaboration between + the Genome 10K project and Beijing Genomics Institute (BGI) to + sequence 100 vertebrate species, and is the first to be + released in the UCSC Genome Browser. For more information about + the <em>G. fortis</em> genome, see the + <a href="http://www.ncbi.nlm.nih.gov/genome/13302" + target=_blank>NCBI website</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/geoFor1/">FTP server</a> or the + <a href="http://hgdownload.cse.ucsc.edu/downloads.html#mediumgroundfinch">Downloads</a> page. + The browser annotation tracks were generated by UCSC and + collaborators worldwide. See the + <a href="/goldenPath/credits.html#mediumgroundfinch_credits">Credits</a> + page for a detailed list of the organizations and individuals + who contributed to this release. We'd like to thank BGI for + contributing the data for this assembly and acknowledge the + UCSC staff members who released this browser: Hiram Clawson and + Greg Roe. + </p> + <HR> +<A NAME="070612"></A> <font face="courier" size="3"><b>14 August 2012 - Changes to our website</b></font> - - <p>We are pleased to announce a few changes to the look and feel of the Genome + <p> + We are pleased to announce a few changes to the look and feel of the Genome Browser website. In addition to a new font throughout the site, the first thing you might notice is a new menu bar across the top of many of the pages. We have reorganized the navigation on our web -applications with you in mind; we hope you find it more intuitive.</p> - -<p>Additionally, we greatly simplified the search mechanism. We collapsed all search methods into a -single box.</p> - + applications with you in mind; we hope you find it more intuitive!</p> + <p> + Additionally, we greatly simplified the search mechanism by + collapsing all search methods into a single box.</p> <a href="http://genome.ucsc.edu/images/autoselect.jpg" style="border:none; display: block; width:700px; height: 129px; margin:0 auto;"><img src="http://genome.ucsc.edu/images/autoselect.jpg" style="width:700px; height: 129px; border: 1px solid #000;"></a> -<p>In this box, you can search for chromosomal coordinate ranges, gene names, accession numbers, -keywords, etc. For a complete list of ways to query the browser data, see <a -href="http://genome.ucsc.edu/goldenPath/help/query.html">Querying the Genome Browser</a>.</p> + <p> + In this box, you can search for chromosomal coordinate ranges, gene names, accession numbers, + keywords, etc. For a complete list of ways to query the browser data, see + <a href="http://genome.ucsc.edu/goldenPath/help/query.html">Querying the Genome Browser</a>.</p> -<p>As always, if you have questions about the website or the data, please <a -href="http://genome.ucsc.edu/contacts.html">Contact Us</a>.</p> + <p> + As always, if you have questions about the website or the data, please + <a href="http://genome.ucsc.edu/contacts.html">Contact Us</a>.</p> <hr> + <!-- start archives --> <p> <font face="courier" size="3"><b>16 July 2012 - Tasmanian Devil - Assembly Now Available in Genome Browser </b></font> - </p> - <p>We are pleased to announce the release of a Genome Browser + assembly now available in Genome Browser: </b></font> + We are pleased to announce the release of a Genome Browser for the February 2011 Tasmanian devil assembly, <em>Sarcophilus harrisii</em> - (WTSI version Devil_refv7.0, UCSC version sarHar1). The Tasmanian devil, - which is native to the island of Tasmania, is at risk of extinction due - to a transmissible facial cancer. The devil population in Tasmania has declined by more - than 80% since the first time the disease was observed 14 years ago. - This draft assembly, created by the <a href="http://www.sanger.ac.uk/" target="_blank" - >Wellcome Trust Sanger Institute</a>, - was sequenced using Illumina reads. This completed genome is the first step - towards finding genetic mutations in the transmissible cancer, which will help - researchers understand the disease and its spread. - <p> - Bulk downloads of the sequence and annotation data are available - via the Genome Browser - <a href="ftp://hgdownload.cse.ucsc.edu/goldenPath/sarHar1/" - >FTP server</a> or the - <a href="http://hgdownload.cse.ucsc.edu/downloads.html#tasmanian_devil" - >Downloads</a> page. The Tasmanian devil browser - annotation tracks were generated by UCSC and collaborators worldwide. - See the - <a href="/goldenPath/credits.html#tasmanian_devil_credits" - >Credits</a> page for a detailed list of the organizations and - individuals who contributed to the success of this release. - <hr> + (WTSI version Devil_refv7.0, UCSC version sarHar1). + <A HREF="goldenPath/newsarch.html#071612">Read more</A>. <P> - <FONT FACE="courier" SIZE="3"><B>06 July 2012 - hgText CGI - To Be Retired </B></FONT> - </P> - <P>We are announcing the imminent retirement of the hgText - CGI. hgText was the original version of the Table Browser, - and was replaced by the new CGI, hgTables, in <A HREF = - "goldenPath/newsarch.html#100104">2004</A>. A very - small number of our users are still accessing the database - using the old hgText CGI. Beginning July 24, 2012, we will - be removing the hgText CGI from our site. All users will need - to use hgTables after that time. </P> - <HR> - - - <!-- start archives --> - <P> - <font face="courier" size="3"><b>19 June 2012 - Many New - Assemblies Available in the Browser!</b></font> - With the abundance of new vertebrate assemblies available in - GenBank, the UCSC Genome Browser team has streamlined its - browser release pipeline in the effort to keep pace. - <A HREF="goldenPath/newsarch.html#061912">Read more</A>. + <FONT FACE="courier" SIZE="3"><B>06 July 2012 - Retirement of + hgText CGI: </B></FONT> + We are announcing the imminent retirement of the hgText + CGI. + <A HREF="goldenPath/newsarch.html#070612">Read more</A>. </P> <P> ==> <a href="goldenPath/newsarch.html">News Archives</a> </TD><TD WIDTH=15> </TD></TR></TABLE> <BR></TD></TR></TABLE> </TD></TR></TABLE>