399fb1f2827a004bac5e046c70a2ad02df19270f gperez2 Tue May 4 11:21:39 2021 -0700 Adding new assembly rn7 to newsArch page, refs #26682 diff --git src/hg/htdocs/goldenPath/newsarch.html src/hg/htdocs/goldenPath/newsarch.html index 9cf51f9..9bac6e0 100755 --- src/hg/htdocs/goldenPath/newsarch.html +++ src/hg/htdocs/goldenPath/newsarch.html @@ -39,30 +39,75 @@ </div> <div class="col-sm-3"> <ul> <li><a href="#2005">2005 News</a></li> <li><a href="#2004">2004 News</a></li> <li><a href="#2003">2003 News</a></li> <li><a href="#2002">2002 News</a></li> <li><a href="#2001">2001 News</a></li> </ul> </div> </div> </div> <!-- ============= 2021 archived news ============= --> <a name="2021"></a> +<a name="050421"></a> +<h2>May. 04, 2021 New Genome Browser: Rat, rn7 (<em>Rattus norvegicus</em>)</h2> +<p> +A genome browser is now available for the <em>Rattus norvegicus</em> assembly released in Nov. 2020 by the +<a href="https://www.darwintreeoflife.org/" target="_blank"> Darwin Tree of Life Project</a> at the +<a href="https://www.sanger.ac.uk/" target="_blank"> Wellcome Sanger Institute</a> (mRatBN7.2). +<h3>About the assembly:</h3> +<ul> + <li><b>UCSC Genome Browser assembly ID:</b> <a href="../../cgi-bin/hgGateway?db=rn7" + target="_blank">rn7</a></li> + <li><b>Sequencing/Assembly provider ID:</b> <a href="https://www.sanger.ac.uk/" + target="_blank">Wellcome Sanger Institute</a></li> + <li><b>Assembly date:</b> Nov. 2020</li> + <li><B>Accession ID:</B> GCF_015227675.2</li> + <li><B>NCBI Genome ID:</B> <A HREF='https://www.ncbi.nlm.nih.gov/genome/73' +TARGET='_blank'>73</A> (<em>Rattus norvegicus</em>)</li> + <li><B>NCBI Assembly ID:</B> <A HREF='https://www.ncbi.nlm.nih.gov/assembly/9079111' +TARGET='_blank'>9079111</A></li> + <li><B>NCBI BioProject ID:</B> <A HREF='https://www.ncbi.nlm.nih.gov/bioproject/662791' +TARGET='_blank'>662791</A></li> + <li><B>NCBI BioSample ID:</B> <A HREF='https://www.ncbi.nlm.nih.gov/biosample/SAMN16261960' +TARGET='_blank'>SAMN16261960</A></li> + <li><b>Scaffold count: </b>176</li> + <li><b>Total size: </b>2,647,915,728</li> + <li><a href="../goldenPath/credits.html#rat_credits" +target="_blank" >Acknowledgments</a></li> +</ul> +<h3>Data and Downloads:</h3> +<ul> + <li><a href="../goldenPath/credits.html#rat_use" +target="_blank" >Data use conditions and restrictions</a></li> + <li><a href="../goldenPath/help/ftp.html" +target="_blank" >Rsync</a> and +<a href="ftp://hgdownload.soe.ucsc.edu/goldenPath/rn7/" +target="_blank" >FTP</a></li> + <li><a href="http://hgdownload.soe.ucsc.edu/downloads.html#rat" +target="_blank" >Downloads page</a></li> +</ul> +</p> +<p> +We would like to thank the Darwin Tree of Life Project at the Wellcome Sanger Institute for +creating this new rat assembly. We would also like to thank Hiram Clawson, Lou Nassar, and +Gerardo Perez for the development and release of the rn7 genome browser. +</p> + <a name="041321"></a> <h2>Apr. 13, 2021 New Haploinsufficiency predictions for human (hg19)</h2> <p> We are happy to announce a new haploinsufficiency predictions track for human assembly <a href="/cgi-bin/hgTrackUi?db=hg19&c=chrX&g=decipherHaploIns">GRCh37/hg19</a>. This track displays haploinsufficiency predictions for human genes from <a href="https://www.deciphergenomics.org/" target="_blank">DECIPHER</a>. Human cells have two copies of most genes, one from each parent. If a mutation alters one allele, or copy, the other is usually still sufficient to maintain proper gene function. For haploinsufficient genes, however, both copies must be functioning for the organism to have a normal life. Haploinsufficiency is implicated in a number of health disorders. </p> <p> Moving the mouse cursor over any gene in the track will display a pop-up box with the gene name and α-upper quantile for the prediction. The genes in this track are also color-coded