60ec88a5ecc6afec9f5b5007876eee53d0300c37 ccpowell Mon Oct 14 16:43:57 2019 -0700 Updating newsArch.html for GENCODE V32 and VM23 release, refs #24087 diff --git src/hg/htdocs/goldenPath/newsarch.html src/hg/htdocs/goldenPath/newsarch.html index 2d4dc40..068b37e 100755 --- src/hg/htdocs/goldenPath/newsarch.html +++ src/hg/htdocs/goldenPath/newsarch.html @@ -39,30 +39,60 @@ </div> <div class="col-sm-3"> <ul> <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> <!-- ============= 2019 archived news ============= --> <a name="2019"></a> +<a name="101519"></a> +<h2>Oct. 15, 2019 New GENCODE gene tracks for human (V32) and mouse (VM23)</h2> +<p> +We are pleased to announce the release of the new GENCODE Gene annotation track for both +<a href="../cgi-bin/hgTracks?db=hg38&g=knownGene" target="_blank">hg38/GRCh37</a> and +<a href="../cgi-bin/hgTracks?db=mm10&g=knownGene" target="_blank">mm10/GRCm38</a> assemblies +corresponding to the +<a href="http://www.ensembl.info/2019/09/26/ensembl-98-has-been-released/" target="_blank"> +Ensembl 98</a> release.</p> + +<p> +The following table provides statistics for the +<a href="../cgi-bin/hgTrackUi?db=hg38&g=knownGene" target="_blank">human V32</a> and +<a href="../cgi-bin/hgTrackUi?db=mm10&g=knownGene" target="_blank">mouse VM23</a> releases derived +from the GTF files that contains annotations only on the main chromosomes. More information on how +they were generated can be found in the +<a href="https://www.gencodegenes.org/" target="_blank">GENCODE site</a>. +<table> + <tr><th>Genes & transcripts</th><th>human V32 Release stats</th><th>mouse V23 Release stats</th></tr> + <tr><th>Protein-coding Genes</th><td>19,965</td><td>21,849</td></tr> + <tr><th>Protein-coding transcripts</th><td>83,986</td><td>59,188</td></tr> + <tr><th>Long non-coding RNA genes</th><td>17,910</td><td>13,201</td></tr> + <tr><th>Small non-coding RNA genes</th><td>7,576</td><td>6,108</td></tr> +</table> + +<p> +More details about the new GENCODE track can be found on the resepctive GENCODE description pages. +We would like to thank the GENCODE team and thank Brian Raney, Mark Diekhans, Jairo Navarro and +Conner Powell at UCSC for their work on this track.</p> + <a name="101119"></a> <h2>Oct. 11, 2019 New "group auto-scale" option</h2> <p> A new "group auto-scale" option is now available for signal tracks collected together in composites. The original auto-scale setting, which is still available, acts to auto-scale each track individually inside a composite group. With the new "group auto-scale" setting, all of the tracks within the composite will scale to the track with the highest auto-scale value viewed in the region.</p> <p> For example, below is a side-by-side image of two views of the same data from a selection of cell lines within a composite of related RNA-seq experiments. On the left is the original "auto-scale to data view" setting, where each track is auto-scaled to appear at each track's highest value. And on the right is the new "group auto-scale" setting for the same RNA-seq data where all tracks are scaled against the one track in the region that has the highest value