818ceca26a944560ea1ca3aaf07161480c364ce0 donnak Tue Apr 9 13:04:08 2013 -0700 Added link to Cancer Genomics Browser and an accompanying news item. diff --git src/hg/htdocs/indexNews.html src/hg/htdocs/indexNews.html index 8f3b49e..0ac1d4b 100755 --- src/hg/htdocs/indexNews.html +++ src/hg/htdocs/indexNews.html @@ -14,88 +14,73 @@ </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>05 March 2013 - - dbSNP 137 Available for mm10</b></font> - <br> + <font face="courier" size="3"><b>09 April 2013 + - The UCSC Cancer Genomics Browser Has a New Look!</b></font> + <p> + The UCSC Cancer Genomics group has recently remodeled the interface of the + <a href="https://genome-cancer.ucsc.edu/" target="blank">Cancer Genomics Browser</a> + to make it easier to navigate and more intuitive to use for + displaying, investigating, and analyzing cancer genomics data and + associated clinical information. This tool provides access to many types of + information—biological pathways, collections of genes, genomic and clinical + information—that can be used to sort, aggregate, and perform statistical + tests on a group of samples. + The Cancer Browser currently displays 473 datasets of 25 cancers from + <a href="http://cancergenome.nih.gov/" target=_"blank">The Cancer Genome Atlas</a> + (TCGA) as well as data from the + <a href="http://www.broadinstitute.org/ccle/home" target="_blank">Cancer Cell + Line Encyclopedia</a> (CCLE) and <a href="http://www.standup2cancer.org/" + target="_blank">Stand Up To Cancer</a>. + <p> + You can find more information about how to use this tool in the online + <a href="https://genome-cancer.soe.ucsc.edu/proj/site/hgHeatmap/#?tutorial=true" + target="_blank" >tutorial</a>, + <a href="https://genome-cancer.ucsc.edu/proj/site/help/" + target="_blank">user's guide</a> + and <a href="https://genome-cancer.ucsc.edu/proj/site/faq/" target="_blank">FAQ</a>. + Any questions or comments should be directed to + <a href="mailto:genome-cancer@soe.ucsc.edu">genome-cancer@soe.ucsc.edu</a>. + </p> + + <!-- start archives --> + <hr> <p> + <font face="courier" size="3"><b>05 March 2013 + - dbSNP 137 Available for mm10: </b></font> We are pleased to announce the release of three tracks derived from dbSNP build 137, available on the mouse assembly (GRCm38/mm10). dbSNP build 137 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. + <a href="goldenPath/newsarch.html#030513">Read more</a>. </p> - <p> - As for dbSNP build 137, there are three tracks in this release. - One is a track containing all mappings of reference SNPs to the - mouse assembly, labeled "All SNPs (137)". The other two tracks - are subsets of this track and show interesting and easily defined - subsets of dbSNP: - </p> - <ul> - <li>Common SNPs (137): uniquely mapped variants that appear in - at least 1% of the population - <li>Mult. SNPs (137): variants that have been mapped to more - than one genomic location - </ul> - <p> - By default, only the Common SNPs (137) are visible; other - tracks must be made visible using the track controls. - </p> - <p> - You will find the three SNPs (137) tracks on the Mouse Dec. - 2011 (GRCm38/mm10) browser in the "Variation and Repeats" group. - </p> - The tracks were produced at UCSC by Angie Hinrichs and Luvina Guruvadoo. - </p> - <hr> <p> <font face="courier" size="3"><b>11 February 2013 - Denisova tracks released on hg19 browser: </b></font> In conjunction with the publication of the paper by Meyer <em>et al.</em> - <a href="http://www.ncbi.nlm.nih.gov/pubmed/22936568"> - A High-Coverage Genome Sequence from an Archaic Denisovan Individual</a> + <a href="http://www.ncbi.nlm.nih.gov/pubmed/22936568" + target=_blank>A High-Coverage Genome Sequence from an Archaic Denisovan Individual</a>, the UCSC Genome Browser is hosting a set of new tracks. <a href="goldenPath/newsarch.html#021113">Read more</a>. </p> - <p> - <font face="courier" size="3"><b>25 January 2013 - - Southern White Rhinoceros Genome Browser Release: </b></font> - We are pleased to announce the release of a Genome Browser for the May 2012 - assembly of the Southern White Rhinoceros, <em>Ceratotherium simum simum</em> - (Broad Institute version cerSimSim1.0, UCSC version cerSim1). - <a href="goldenPath/newsarch.html#012513">Read more</a>. - </p> - - <p> - <font face="courier" size="3"><b>22 January 2013 - - New Baboon (papAnu2) Assembly Now Available in the Genome Browser: </b></font> - We are pleased to announce the release of a Genome Browser for the March 2012 - assembly of the Olive Baboon, <em>Papio anubis</em> (Baylor Panu_2.0, UCSC version - papAnu2). - <a href="goldenPath/newsarch.html#012213">Read more</a>. - </p> - - - - <!-- start archives --> ==> <a href="goldenPath/newsarch.html">News Archives</a> </TD><TD WIDTH=15> </TD></TR></TABLE> <BR></TD></TR></TABLE> </TD></TR></TABLE>