2740c034d0cb877c9bd055c5a897fa458d458bfa gperez2 Wed Aug 26 20:38:59 2026 -0700 Defining the MPC acronym per Bob's feedback, and pluralizing "track" to "tracks", in the gnomAD v4.1.1 announcement. refs #38166 diff --git src/hg/htdocs/goldenPath/newsarch.html src/hg/htdocs/goldenPath/newsarch.html index 2cdc1c06f7d..12ca13960bd 100644 --- src/hg/htdocs/goldenPath/newsarch.html +++ src/hg/htdocs/goldenPath/newsarch.html @@ -57,32 +57,32 @@ 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> <!-- ============= 2026 archived news ============= --> <a name="2026"></a> <a name="082626"></a> <h2>Aug. 26, 2026 gnomAD v4.1.1 and MPC tracks for hg38</h2> <p> We are excited to announce the updated <b>Genome Aggregation Database (gnomAD) v4.1.1 tracks</b> for human assembly -hg38/GRCh38, along with a -new <b>gnomAD MPC track</b>, both found in the <a target=_blank href="/cgi-bin/hgTrackUi?db=hg38&g=gnomadVariants">gnomAD superTrack</a>. The tracks are:</p> +hg38/GRCh38, and +new <b>gnomAD Missense Deleteriousness Prediction by Constraint (MPC)</b> tracks, found in the <a target=_blank href="/cgi-bin/hgTrackUi?db=hg38&g=gnomadVariants">gnomAD superTrack</a>. The tracks are:</p> <ul> <li><b><a href="/cgi-bin/hgTrackUi?db=hg38&g=gnomadVariantsV4.1" target="_blank">gnomAD v4.1.1</a></b> (composite track): Shows exome and genome variants. This release revises the LOFTEE END_TRUNC GERP distance threshold from -58.0 to 0.0, reclassifying about 79,920 predicted loss-of-function variants from high-confidence to low-confidence.</li> <li><b><a href="/cgi-bin/hgTrackUi?db=hg38&g=gnomadPLI" target="_blank">gnomAD Constraint Metrics</a></b> (composite track): The v4.1.1 constraint metrics were recomputed using a Bayesian framework instead of the previous frequentist approach, expanded the coverage model from a depth cutoff to allele number, and now include chrX and chrY. gnomAD's recommended LOEUF threshold changed from <0.35 to <0.45 accordingly. The two v4.1.1 subtracks: <ul> <li><b>Transcript LoF v4.1.1</b>: gnomAD Predicted Loss of Function Constraint Metrics By Transcript (LOEUF and pLI)</li> <li><b>Transcript Missense v4.1.1</b>: gnomAD Predicted Missense Constraint Metrics By Transcript (Z-scores)</li> </ul> </li>