0c12430b872310f016b018db863d09697dc4deaf gperez2 Tue Jan 26 11:49:25 2021 -0800 Code review edits to gnomAD track announcement, updated CGI links, and uncapitalized words, refs #26858 diff --git src/hg/htdocs/goldenPath/newsarch.html src/hg/htdocs/goldenPath/newsarch.html index 6a09479..9dacfa4 100755 --- src/hg/htdocs/goldenPath/newsarch.html +++ src/hg/htdocs/goldenPath/newsarch.html @@ -82,50 +82,48 @@ <ul> <li><a href="../goldenPath/credits.html#dog_use" target="_blank" >Data use conditions and restrictions</a></li> <li><a href="../goldenPath/help/ftp.html" target="_blank" >Rsync</a> and <a href="ftp://hgdownload.soe.ucsc.edu/goldenPath/canFam5/" target="_blank" >FTP</a></li> <li><a href="http://hgdownload.soe.ucsc.edu/downloads.html#dog" target="_blank" >Downloads page</a></li> </ul> </p> <a name="012221"></a> <h2>Jan. 22, 2021 Updates to gnomAD variation track (GRCh37/hg19)(GRCh38/hg38)</h2> <p> -We are pleased to announce updates to the -<a href="../../cgi-bin/hgTrackUi?db=hg38&c=chr22&g=gnomadVariants" -target="_blank">gnomAD Variants super-track</a> for the <a target="_blank" -href="../../cgi-bin/hgTrackUi?db=hg19&c=chrX&g=gnomadSuper">hg19/GRCh37</a> +We are pleased to announce updates to the gnomAD Variants super-track for the <a target="_blank" +href="/cgi-bin/hgTrackUi?db=hg19&c=chrX&g=gnomadSuper">hg19/GRCh37</a> and <a target="_blank" -href="../../cgi-bin/hgTrackUi?db=hg38&c=chrX&g=gnomadVariants">hg38/GRCh38</a> +href="/cgi-bin/hgTrackUi?db=hg38&c=chrX&g=gnomadVariants">hg38/GRCh38</a> human assemblies.</p> <ul> <li>gnomAD v3.1 is now available and contains variants from 76,156 whole genomes (and no exomes), all mapped to the GRCh38/hg38 reference sequence. 4,454 genomes were added to the number of genomes in the previous v3 release. For more detailed information on gnomAD v3.1, see the related <a href="https://gnomad.broadinstitute.org/blog/2020-10-gnomad-v3-1/"target="_blank">blog post</a>.</li> <li>The latest release (gnomAD 2.1.1) is also available for GRCh37/hg19 genome assembly. This release contains variant data for 125,748 exomes and 15,708 whole genomes.</li> <li>Three filters are now available for our updated v2.1.1 (GRCh37/hg19) and gnomAD v3.1 (GRCh38/hg38) tracks, by minor allele frequency (MAF), quality tags, annotation type, and variant type.</li> <li>Mouse hover over now displays details about each variant, including the affected gene(s), the variant type, and annotation.</li> - <li>Following the conventions on the gnomAD browser, items are shaded according to their Annotation type: pLoF - is red, Missense is orange, Synonymous is green, and Others are black.</li></ul> + <li>Following the conventions on the gnomAD browser, items are shaded according to their annotation type: pLoF + is red, missense is orange, synonymous is green, and others are black.</li></ul> <p class="text-center"> <img class='text-center' src="../images/gnomadV3_1.jpg" width='100%' alt="The gnomAD v3.1 track display."> </p> <p> We would like to thank the <a target="_blank" href="http://gnomad.broadinstitute.org/">Genome Aggregation Database (gnomAD)</a> team at the BROAD institute and the UCSC Genome Browser team members Christopher Lee, Anna Benet-Pages, Daniel Schmelter, and Gerardo Perez for developing and releasing these tracks.</p> <a name="011321"></a> <h2>Jan. 13, 2021 New GENCODE gene tracks: Human V35/V36 (hg19/hg38)</h2> <p> We are pleased to announce new GENCODE Gene annotation tracks, which correspond to <a href="http://www.ensembl.info/2020/08/20/ensembl-101-has-been-released/"