e8352ce7ee3857395ec6de64a23f30f20c1e39b9 mary Wed Feb 29 16:13:26 2012 -0800 Adding RGD Genes to the news. Commenting out mm10 announcement until later diff --git src/hg/htdocs/indexNews.html src/hg/htdocs/indexNews.html index d4605fa..c505dd9 100644 --- src/hg/htdocs/indexNews.html +++ src/hg/htdocs/indexNews.html @@ -1,125 +1,96 @@ <!--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="https://lists.soe.ucsc.edu/mailman/listinfo/genome-announce" TARGET=_blank>genome-announce</A> mailing list.</P> <!-- start news --> + <FONT FACE="courier" SIZE="3"><B>29 February 2012 + - RGD Genes available for rn4</B></FONT> + <P> + We are pleased to announce the release of RGD Genes for rat + (Baylor 3.4/rn4). This track shows protein-coding gene annotations + curated by <a href="http://rgd.mcw.edu/" target=_blank>RGD</a>. This track + replaces UCSC Known Genes as the main gene track for this assembly. + </P> + <P> + More details about this track can be found on the + <a href=" ../../cgi-bin/hgTrackUi?db=rn4&g=rgdGene2" target=_blank> + RGD Genes track description page</a>. + </P> + <P> + We'd like to thank RGD for providing the base annotations for this + track. The RGD Genes track was produced by Fan Hsu, Mary Goldman and + Hiram Clawson. + </P> + +<!-- Commenting out mouse update <FONT FACE="courier" SIZE="3"><B>05 March 2012 - New Mouse Browser Available</B></FONT> <P> We have released the latest Genome Browser for the December 2011 Mouse genome assembly produced by the <a href="http://www.ncbi.nlm.nih.gov/projects/genome/assembly/grc/mouse/" TARGET=_blank> Mouse Genome Reference Consortium</a> (NCBI Build 38, UCSC version mm10). This version, which includes approximately 2.6 Gb of sequence, is considered to be "essentially complete". The assembly includes chromosomes 1-19, X, Y, M (mitochondrial DNA) and chr*_random (unlocalized) and chrUn_* (unplaced clone contigs). Note that the UCSC mm10 database contains only the reference strain C57BL/6J. <P> Bulk downloads of the sequence and annotation data are available via the Genome Browser <a href="ftp://hgdownload.cse.ucsc.edu/goldenPath/mm10/" TARGET=_blank>FTP server</a> or the <a href="http://hgdownload.cse.ucsc.edu/downloads.html#mouse" TARGET=_blank>Downloads</a> page. The Mouse browser annotation tracks were generated by UCSC and collaborators worldwide. See the <a href="http://hgwdev.cse.ucsc.edu/goldenPath/credits.html#mouse_credits" TARGET=_blank>Credits</a> page for a detailed list of the - organizations and individuals who contributed to the success of this release. <P> - <HR> - - <!-- more news --> - <FONT FACE="courier" SIZE="3"><B>10 February 2012 - - dbSNP 135 Available for hg19</B></FONT> - <P>We are pleased to announce the release of four tracks derived - from dbSNP build 135, available on the human assembly (GRCh37/hg19). - dbSNP build 135 is available at NCBI. The new tracks contain - additional annotation data not included in previous dbSNP tracks, - with corresponding coloring and filtering options in the Genome - Browser. - </P> + organizations and individuals who contributed to the success of this release. + --> <P> - As for dbSNP build 132, there are four tracks in this release. - One is a track containing all mappings of reference SNPs to the - human assembly, labeled "All SNPs (135)". The other three tracks - are subsets of this track and show interesting and easily defined - subsets of dbSNP: - </P> - - <UL> - <LI>Common SNPs (135): uniquely mapped variants that appear in - at least 1% of the population - <LI>Flagged SNPs (135): uniquely mapped variants, excluding - Common SNPs, that have been flagged by dbSNP as "clinically - associated" - <LI>Mult. SNPs (135): variants that have been mapped to more - than one genomic location - </UL> - - <P>By default, only the Common SNPs (135) are visible; other - tracks must be made visible using the track controls. - </P> - - <P>You will find the four SNPs (135) tracks on the Human Feb. - 2009 (GRCh37/hg19) browser in the "Variation and Repeats" group. - </P> - - </P> Many thanks to dbSNP at NCBI for the data, and to - Mary-Claire King at the University of Washington for helpful - comments that motivated us to enhance our dbSNP annotations. The - tracks were produced at UCSC by Angie Hinrichs and Brooke Rhead. - </P> <HR> <!-- start archives --> + <FONT FACE="courier" SIZE="3"><B>10 February 2012 + - dbSNP 135 Available for hg19: </B></FONT> + We are pleased to announce the release of four tracks derived + from dbSNP build 135, available on the human assembly + (GRCh37/hg19). + <A HREF="goldenPath/newsarch.html#100212">Read more</A>. + <P> <FONT FACE="courier" SIZE="3"><B>2 February 2012 - New UCSC Genes Track Released for GRCh37/hg19: </B></FONT> We're happy to announce the release of an updated UCSC Genes track for the GRCh37/hg19 human Genome Browser. <A HREF="goldenPath/newsarch.html#020212">Read more</A>. <P> - <FONT FACE="courier" SIZE="3"><B>23 January 2012 - Wallaby - Browser Available: </B></FONT> - We have released a Genome Browser for the September 2009 - genome assembly of the Tammar Wallaby, <em>Macropus - eugenii</em> (TWGS version Meug_1.1, UCSC version macEug2). - <A HREF="goldenPath/newsarch.html#230112">Read more</A>. - <P> - <FONT FACE="courier" SIZE="3"><B>3 January 2012 - Roadmap - Epigenomics Now Available through Data Hub at Washington - University: </B></FONT> - We are pleased to announce the release of the Roadmap - Epigenomics data on the UCSC Genome Browser through our - Data Hub function. - <A HREF="goldenPath/newsarch.html#030112">Read more</A>. - <P> ==> <a href="goldenPath/newsarch.html">News Archives</a> </TD><TD WIDTH=15> </TD></TR></TABLE> <BR></TD></TR></TABLE> </TD></TR></TABLE>