355b8d5d8aa5bcb9bc91248080a8ece329ac15c4 ccpowell Wed Oct 16 10:26:03 2019 -0700 Additional edits made to the newarch.html page for the GENCODE Genes release, refs #24087 diff --git src/hg/htdocs/goldenPath/newsarch.html src/hg/htdocs/goldenPath/newsarch.html index beda37a..47089d9 100755 --- src/hg/htdocs/goldenPath/newsarch.html +++ src/hg/htdocs/goldenPath/newsarch.html @@ -43,56 +43,56 @@ <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="101619"></a> <h2>Oct. 16, 2019 New GENCODE Genes tracks for human (V32) and mouse (VM23)</h2> <p> We are pleased to announce the release of updated GENCODE Genes annotation tracks for both the -<a href="../cgi-bin/hgTracks?db=hg38&g=knownGene" target="_blank">hg38/GRCh37</a> and +<a href="../cgi-bin/hgTracks?db=hg38&g=knownGene" target="_blank">hg38/GRCh38</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 +from the GTF files that contain annotations only on the main chromosomes. More information on how these statistics were generated can be found on the <a href="https://www.gencodegenes.org/" target="_blank">GENCODE site</a>. <div align="center"> <table class="stdTbl"> <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 style="text-align:center">19,965</td><td style="text-align:center">21,849</td></tr> <tr><th>Protein-coding transcripts</th><td style="text-align:center">83,986</td><td style="text-align:center">59,188</td></tr> <tr><th>Long non-coding RNA genes</th><td style="text-align:center">17,910</td><td style="text-align:center">13,201</td></tr> <tr><th>Small non-coding RNA genes</th><td style="text-align:center">7,576</td><td style="text-align:center">6,108</td></tr> <tr><th>Psuedogenes</th><td style="text-align:center">14,749</td><td style="text-align:center">13,681</td></tr> </table></div> <p> -More details about the new GENCODE track can be found on the resepctive GENCODE description pages. +More details about these new GENCODE Genes tracks can be found on the respective 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