50b498ed99557aa0cd1ee5476b51395b0ad07418 dschmelt Wed Mar 17 16:13:31 2021 -0700 Adding news annoucement, link fix for covid, and last minute changes for knownGene refs #26919 diff --git src/hg/htdocs/goldenPath/newsarch.html src/hg/htdocs/goldenPath/newsarch.html index c578982..214fb18 100755 --- src/hg/htdocs/goldenPath/newsarch.html +++ src/hg/htdocs/goldenPath/newsarch.html @@ -40,33 +40,58 @@ <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="031721"></a> +<h2>Updated hg38 default gene track to GENCODE v36</h2> +<p> +We have updated the most recent human genome, GRCh38/hg38, with an updated default gene set, +<a href="../cgi-bin/hgTrackUi?db=hg38&g=knownGene">GENCODE v36</a>. This is part of our commitment +to keep our annotation data as up-to-date as possible with the most +useful information, all versioned for maximum stability and reproducibility. This geneset +replaces our previous default, GENCODE v32, with a more recent dataset while retaining all +of the filters, viewing options, and data access abilities. The previous +version can still be viewed in the <a href="../cgi-bin/hgTrackUi?db=hg38&g=wgEncodeGencodeSuper"> +All GENCODE</a> track. You can view the new default geneset at the following link:</p> +<ul> +<li><a href="../cgi-bin/hgTracks?db=hg38&hideTracks=1&knownGene=pack">GENCODE v36</a></li> +</ul> +<p> +The default gene dataset is called "knownGene" internally at UCSC and is +used in many bioinformatics pipelines as a reference geneset. +The GRCh37/hg19 default geneset will stay the same.</p> + +<p> +The UCSC Genome Browser would like to thank the <a href="https://www.gencodegenes.org/" + target="_blank">GENCODE consortium</a> +and the internal development team at UCSC, including Daniel Schmelter and Brian Raney.</p> + <a name="030421"></a> <h2>Mar. 4, 2021 Updated NCBI RefSeq Gene Tracks for 13 organisms</h2> -<p>We are pleased to announce a combination of both updated and new +<p> +We are pleased to announce a combination of both updated and new <a href="https://www.ncbi.nlm.nih.gov/refseq/" target="_blank"> NCBI RefSeq gene annotation</a> tracks for the following 13 assemblies. Most notably, we have updated both human assemblies and the new mouse assembly.</p><br> <div class="container"> <div class="row"> <div class="col-sm-3"> <ul> <li>Human <a href="../cgi-bin/hgTrackUi?g=refSeqComposite&db=hg19">(hg19)</a></li> <li>Human <a href="../cgi-bin/hgTrackUi?g=refSeqComposite&db=hg38">(hg38)</a></li> <li>Mouse <a href="../cgi-bin/hgTrackUi?g=refSeqComposite&db=mm39">(mm39)</a></li> <li>Worm <a href="../cgi-bin/hgTrackUi?g=refSeqComposite&db=ce11">(ce11)</a></li> </ul> </div> <div class="col-sm-3">