22169c59d3ce88d6006f36adeb18a9418a5bd6ef gperez2 Thu May 8 14:50:26 2025 -0700 Announcing the release of the VISTA Enhancers track update, refs #35531 diff --git src/hg/htdocs/goldenPath/newsarch.html src/hg/htdocs/goldenPath/newsarch.html index 1138a149ab5..6c764658dfc 100755 --- src/hg/htdocs/goldenPath/newsarch.html +++ src/hg/htdocs/goldenPath/newsarch.html @@ -52,30 +52,56 @@ <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="050525"></a> +<h2>May 5, 2025 VISTA Enhancers track update for Human and Mouse</h2> +<p> +We are happy to announce an update to the VISTA Enhancers tracks for human +(<a target="_blank" + href="/cgi-bin/hgTrackUi?db=hg38&position=default&g=vistaEnhancersBb">GRCh38/hg38</a> +and <a target="_blank" + href="/cgi-bin/hgTrackUi?db=hg19&position=default&g=vistaEnhancersBb">GRCh37/hg19</a>) +and mouse (<a target="_blank" + href="/cgi-bin/hgTrackUi?db=mm39&position=default&g=vistaEnhancersBb">GRCm39/mm39</a> +and <a target="_blank" + href="/cgi-bin/hgTrackUi?db=mm10&position=default&g=vistaEnhancersBb">GRCm38/mm10</a>) +genome assemblies. The track shows potential enhancers whose activity was experimentally validated +in transgenic mice. With this update, the tracks now include over 1,900 new entries for the human +assemblies and over 2,500 new entries for the mouse assemblies. Hovering over an enhancer annotation +now displays the tissues in which the element is active. Most of these noncoding elements were +selected for testing based on their extreme conservation in other vertebrates or epigenomic +evidence (ChIP-Seq) of putative enhancer marks. More information on this track can be found on the +<a href="/cgi-bin/hgTrackUi?db=hg38&g=vistaEnhancersBb&position=default#TRACK_HTML" + target="_blank">track description</a> page.</p> +<p> +We would like to thank the Lawrence Berkeley National Laboratory and the +<a target="_blank" href="https://enhancer.lbl.gov/vista/">VISTA Enhancer team</a> for providing +this data. We would also like to thank Max Haeussler and Gerardo Perez for their efforts on this +release.</p> + <a name="033125"></a> <h2>Mar. 31, 2025 New Pseudogenes track for hg38</h2> <p> We are happy to announce the release of the <a target="_blank" href="/cgi-bin/hgTrackUi?db=hg38&g=pseudogenes&position=default">Pseudogenes</a> track for the hg38 (GRCh38) genome assembly. The composite track contains pseudogene predictions and their corresponding parent genes, as identified by <a href="http://pseudogene.org/pseudopipe/" target="_blank">PseudoPipe</a>, a homology-based computational pipeline that searches a mammalian genome and identifies pseudogene sequences.</p> <p> This composite track consists of two subtracks: the <b>Pseudogene Parents</b> track and the <b>Pseudogenes</b> track.</p> <ul> <li><b>Pseudogene Parents</b> – This track displays parent genes labeled with their HUGO IDs, which were derived from Ensembl gene IDs provided by the Gerstein lab after dataset