846b16c08f03187d48734d7a860a8d1ff8528570 gperez2 Fri Nov 14 18:53:15 2025 -0800 Releasing and announcing the Varaico tracks, refs #36612 diff --git src/hg/htdocs/goldenPath/newsarch.html src/hg/htdocs/goldenPath/newsarch.html index 21e779e75c7..4c9d1964a86 100755 --- src/hg/htdocs/goldenPath/newsarch.html +++ src/hg/htdocs/goldenPath/newsarch.html @@ -52,30 +52,57 @@ <p>You can sign-up to get these announcements via our <a target=_blank href="https://groups.google.com/a/soe.ucsc.edu/g/genome-announce?hl=en">Genome-announce</a> email list. We send around one short announcement email every two weeks.</p> <p>Smaller software changes are not announced here. A summary of the three-weekly release changes can be found <a target=_blank href="https://genecats.gi.ucsc.edu/builds/versions.html">here</a>. For the full list of our daily code changes head to our <a href="https://github.com/ucscGenomeBrowser/kent/commits/master" target=_blank>GitHub page</a>. Lastly, see our <a href="credits.html" target="_blank"> credits page</a> for acknowledgments of the data we host.</p> <!-- ============= 2025 archived news ============= --> <a name="2025"></a> +<a name="111425"></a> +<h2>Nov. 14, 2025 Updated Varaico Variants track and new Varaico Variants (suppl) track</h2> +<p> +We are pleased to announce the release 2 of the <b>Varaico Variants track</b> and the addition of a new +<b>Varaico Variants (suppl) track</b> for the human assemblies +<a href="/cgi-bin/hgTrackUi?db=hg38&position=default&g=varsInPubs" + target="_blank">hg38/GRCh38</a> and +<a href="/cgi-bin/hgTrackUi?db=hg19&position=default&g=varsInPubs" + target="_blank">hg19/GRCh37</a>. The Varaico tracks are generated using literature mining +methods similar to those used for the <a href="http://bejerano.stanford.edu/AVADA/" + target="_blank">AVADA</a> +resource. With this update, the Varaico Variants track +now contains more than 5.5 million variants.</p> +<p> +The Varaico Variants (suppl) track shows variants extracted from supplementary data files using +similar methods to those used for the primary Varaico track..</p> +<div class="text-center"> +<img src="../../images/newsArchImages/varaicoRelease2.png" width='80%'></a> +</div> +<p> +For more information, please visit the <a href="https://varaico.com/" + target="_blank">Varaico website</a>.</p> +<p> +We would like to thank Johannes Birgmeier for generating and making the Varaico data available. +We would also like to thank Maximilian Haeussler, Jairo Navarro Gonzalez, and Gerardo Perez for +creating and releasing these tracks.</p> + <a name="103125"></a> <h2>Oct. 31, 2025 New GENCODE "knownGene" V49 for human (hg38/hg19) and VM38 for mouse (mm39)</h2> <p> We are happy to announce the new GENCODE gene annotation tracks, corresponding to <a href="https://www.ensembl.info/2025/09/02/ensembl-115-has-been-released/" target="_blank">Ensembl release 115</a>, along with GENCODE knownGene V49 for human (<a href="/cgi-bin/hgTrackUi?db=hg38&position=default&g=knownGene">hg38/GRCh38</a> and <a href="/cgi-bin/hgTrackUi?db=hg19&position=default&g=knownGene">hg19/GRCh37</a>) and GENCODE knownGene VM38 for mouse (<a href="/cgi-bin/hgTrackUi?db=mm39&position=default&g=knownGene">mm39/GRCm39</a>). The GENCODE "knownGene" V49 and VM38 tracks were built using the UCSC knownGene pipeline and the GENCODE comprehensive gene set to generate high-quality manual annotations merged with