7864b9423672476a19fa8d52d7801504f309afe9 jnavarr5 Tue Sep 30 15:10:50 2025 -0700 Updating the long/short label for the long-read variants container. Updating the announcement for CoLoRSdb to reflect this change, refs #34120 diff --git src/hg/htdocs/goldenPath/newsarch.html src/hg/htdocs/goldenPath/newsarch.html index 702a82a69dd..5a603408f75 100755 --- src/hg/htdocs/goldenPath/newsarch.html +++ src/hg/htdocs/goldenPath/newsarch.html @@ -85,32 +85,32 @@ 92.2% of coding regions, and 96.3% of ClinVar pathogenic variants. The track can be used to filter variant calls for clinical or research human samples. It shows regions that are easy to sequence, rather than those that are problematic. The data was derived from the HPRC assemblies, and this track presents the 151b-easy panmask set.</p> <p> We would like to thank the <a href="https://hlilab.github.io/" target="_blank">HLi lab</a> at Harvard Medical School for making this data available. We would also like to thank Max Haeussler and Gerardo Perez for their efforts on this release.</p> <a name="092425"></a> <h2>Sep. 24, 2025 CoLoRSdb small and structure variants for hg38 and hs1</h2> <p> We are excited to announce the release of the CoLoRSdb Small and Structural Variant tracks for the human assemblies -<a href="/cgi-bin/hgTrackUi?db=hg38&g=structuralVariants&position=default" target="_blank">GRCh38/hg38</a> and -<a href="/cgi-bin/hgTrackUi?db=hs1&g=hub_3671779_structuralVariants&position=default" +<a href="/cgi-bin/hgTrackUi?db=hg38&g=longReadVariants&position=default" target="_blank">GRCh38/hg38</a> and +<a href="/cgi-bin/hgTrackUi?db=hs1&g=hub_3671779_longReadVariants&position=default" target="_blank">CHM13/hs1</a>. These tracks provide a comprehensive catalog of genetic variation discovered through long-read whole genome sequencing, contributed by the international <a href="https://colorsdb.org" target="_blank">Consortium of Long Read Sequencing (CoLoRS)</a>. The small variant tracks (DeepVariant + GLnexus) contain single nucleotide polymorphisms (SNPs) and short indels, while the structural variant tracks (pbsv + Jasmine) display larger events including insertions, deletions, and inversions. Long-read sequencing technology improves sensitivity in repetitive regions and provides more precise breakpoint resolution than short-read approaches, enabling accurate visualization of complex loci in the Genome Browser.</p> <p> Each track includes allele frequency and sample count annotations, with additional filtering options for variant size and type. Users can click on individual variants to view detailed metadata, such as allele counts, homozygous/heterozygous call distributions, and Hardy-Weinberg equilibrium values. </p> <div class="text-center">