2c7d12ef0aab69c0f6e2c27da2a8e89dc32a6428 mspeir Tue Jul 15 14:48:35 2025 -0700 adding announcement for encode4 long-read transcript triplets track, refs #31368 diff --git src/hg/htdocs/goldenPath/newsarch.html src/hg/htdocs/goldenPath/newsarch.html index 34b185225c3..a5d86b64401 100755 --- src/hg/htdocs/goldenPath/newsarch.html +++ src/hg/htdocs/goldenPath/newsarch.html @@ -52,30 +52,63 @@ <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="070925"></a> +<h2>July 15, 2025 ENCODE4 Long-read RNA-seq Transcripts</h2> +<p> +We are pleased to announce the release of the ENCODE4 long-read RNA-seq transcripts track for +<a href="/cgi-bin/hgTrackUi?db=hg38&position=default&g=encode4LongRnaTranscripts" +target="_blank">hg38</a> and +<a href="/cgi-bin/hgTrackUi?db=mm10&position=default&g=encode4LongRnaTranscripts" +target="_blank">mm10</a>. +This track annotates trancripts using numerical triplets representing the +identity of the start site, exon junction chain, and transcript end site of +each transcript. This is presented alongside sample enrichment information to +show how promoter selection, splice pattern, and 3’ processing are deployed +across human tissues. +</p> + +<div class="text-center"> + <img src="../images/encode4LongReadTranscriptsHelp.png" + alt="Screenshot showing ENCODE4 long-read transcripts track"> +</div> +<p> +Transcripts are labeled with triplets, e.g. [1,1,1] or [1,1,3] or [2,1,3]. +If transcripts share a number in any of the positions that means they share +that feature, e.g. sharing a 8 in the second position but different numbers in +the others means those two transcripts share the same set of exons, but different +start and end sites. +</p> + +<p> +This track is part of a "Long-read Transcripts" supertrack that will +consist of other datasets derived from third-generation sequencing technology, +such as PacBio and Oxford Nanopore. +</p> + <a name="070925"></a> <h2>July 09, 2025 Unusually Conserved Regions track for hg38</h2> <p> We are happy to announce the release of the <a href="/cgi-bin/hgTrackUi?db=hg38&position=default&g=unusualcons" target="_blank">Unusually Conserved Regions</a> track for GRCh38/hg38. The supertrack consists of 12 tracks that show regions of unusual conservation in humans relative to other organisms. The full list of tracks, along with item count and coverage is summarized in the following table: </p> <p> <table class="stdTbl"> <tbody><tr> <th>Track</th> <th>Count</th> <th>Coverage in bp</th> </tr>