998f09b6da06e82ac416122c08aa2ec32694b409 gperez2 Thu Mar 6 14:27:46 2025 -0800 Announcing the release of the MITOMAP track, refs #24849 diff --git src/hg/htdocs/goldenPath/newsarch.html src/hg/htdocs/goldenPath/newsarch.html index ff837a70f98..68ad1169a21 100755 --- src/hg/htdocs/goldenPath/newsarch.html +++ src/hg/htdocs/goldenPath/newsarch.html @@ -52,30 +52,74 @@ <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="030625"></a> +<h2>Mar. 06, 2025 New MITOMAP track for hg38 and hg19</h2> +<p> +We are pleased to announce the release of the MITOMAP track for the +<a target="_blank" href="/cgi-bin/hgTrackUi?db=hg38&c=chrM&g=mitoMap">hg38/GRCh38</a> +and <a target="_blank" +href="/cgi-bin/hgTrackUi?db=hg19&c=chrMT&g=mitoMap">hg19/GRCh37</a> human assemblies. +<a target="_blank" href="https://www.mitomap.org/foswiki/bin/view/MITOMAP/WebHome">MITOMAP</a> +is a database of human mitochondrial DNA (mtDNA) variation, allowing users to look up human +mitochondrial gene loci, search public mitochondrial sequences, and browse or search for reported +nucleotide variants in both the general population and clinical disease studies. +</p> +<p> +This release includes two tracks within the MITOMAP composite track: +</p> +<ul> + <li><b>MITOMAP Control and Coding Variants</b> – Contains variants, including mini + insertions and deletions, in the complete mtDNA. The item colors correspond to the variant + type: + <b><font color="#53AF01">control region</font></b> + vs. <b><font color="#3E89D3">coding region</font></b> + <li><b>MITOMAP Disease Mutations</b> – Contains disease-annotated mutations (variants) in + the complete mtDNA. The item colors correspond to the variant type: + <b><font color="##015587">coding/control</font></b> + vs.<b><font color="#9933FF">rRNA/tRNA</font></b> +</ul> +<div class="text-center"> + <a href="https://genome.ucsc.edu/s/gperez2/MITOMAP" target="_blank"> + <img src="../images/newsArchImages/mitoMap_MT_TL1.jpg" alt="hg38 session + visualizing the MITOMAP track" width='60%'></a> +</div> + +<p> +More information on this composite track can be found on the +<a href="/cgi-bin/hgTrackUi?db=hg38&c=chrM&g=mitoMap#TRACK_HTML" target="_blank">track description</a> +page. +</p> +<p> +We would like to thank Shiping Zhang and the entire MITOMAP resource for making these annotations +available. We would also like to thank Max Haeussler, Luis Nassar, and Gerardo Perez for their +efforts on this release. +</p> + + <a name="030525"></a> <h2>Mar. 05, 2025 New Splicing Impact Prediction Scores super track (hg19/hg38) and SpliceVarDB track for hg38</h2> <p> We are excited to announce the new Splicing Impact Prediction Scores and Databases super track for the <a target="_blank" href="/cgi-bin/hgTrackUi?db=hg38&g=spliceImpactSuper&position=default">hg38/GRCh38</a> and <a target="_blank" href="/cgi-bin/hgTrackUi?db=hg19&g=spliceImpactSuper&position=default">hg19/GRCh37</a> human assemblies. This super track includes the <a target="_blank" href="newsarch.html#042524">AbSplice Scores</a>, <a target="_blank" href="newsarch.html#081224">SpliceAI</a>, and, for hg38, the new <a target="_blank" href="/cgi-bin/hgTrackUi?db=hg38&g=spliceVarDb&position=default">SpliceVarDB track</a>. <a target="_blank" href="https://splicevardb.org/">SpliceVarDB</a> is an online database consolidating over 50,000 variants assayed for their effects on