40f61eea47cc8f5e458bda156f5f48de4c28b08e dschmelt Fri Sep 25 10:19:12 2020 -0700 Updating newsarch for refs #26129 diff --git src/hg/htdocs/goldenPath/newsarch.html src/hg/htdocs/goldenPath/newsarch.html index a7d6102..c9c625c 100755 --- src/hg/htdocs/goldenPath/newsarch.html +++ src/hg/htdocs/goldenPath/newsarch.html @@ -42,62 +42,67 @@ <li><a href="#2005">2005 News</a></li> <li><a href="#2004">2004 News</a></li> <li><a href="#2003">2003 News</a></li> <li><a href="#2002">2002 News</a></li> <li><a href="#2001">2001 News</a></li> </ul> </div> </div> </div> <!-- ============= 2020 archived news ============= --> <a name="2020"></a> <a name="092520"></a> <h2>New data and visualization types: Covid GWAS (Lollypop) and Family Trios (VCF Trios)</h2> -<h3>Covid GWAS meta-analysis (Lollypop format)</h3> +<h3>Covid GWAS meta-analysis</h3> <p> -We are happy to announce the COVID-19 GWAS tracks in /both popular human genomes -(<a href="../../cgi-bin/hgGateway?db=hg19">GRCh37/hg19</a> and -<a href="../../cgi-bin/hgGateway?db=hg38">GRCh38/hg38</a>). -These tracks show GWAS meta-analyses from the <a href="https://www.covid19hg.org/" target="_blank"> -COVID-19 Host Genetics Initiative (HGI)</a>, a collaborative effort to analyze and share viral host -genetics research. This track brings together data from 26 GWAS studies and aims to identify +We are happy to announce the first COVID-19 tracks in our human genome browsers +<a href="../../cgi-bin/hgGateway?db=hg19">GRCh37/hg19</a> and +<a href="../../cgi-bin/hgGateway?db=hg38">GRCh38/hg38</a>, the COVID-19 GWAS meta-analysis. +This track brings together data from 17 international GWAS studies and aims to identify genetic determinants of SARS-CoV-2 infection susceptibility and disease severity. +These data are from the <a href="https://www.covid19hg.org/results/" target="_blank"> +COVID-19 Host Genetics Initiative (HGI)</a>, a collaborative effort to analyze and share viral host +genetics research. More resources +are available on our page: <a href="../../covid19.html">COVID-19 Resources at UCSC</a>. </p> + <p> -These data are shown in our new Lollypop visualization in order to show the added -dimensions of effect size and p-value in addition to location. Filters are also +These data are shown in our new lollypop visualization in order to show the dimensions of +effect size and p-value in addition to location. Filters are also available for these variables and the number of studies. Custom tracks using the -lollypop format is not yet available. For more information on these +lollypop format are not yet available. For more information on these datasets, please read the track description page and try the interactive visualization for yourself:</p> <ul> <li><a href="../../cgi-bin/hgTrackUi?db=hg19&g=covidHgiGwas">COVID-19 GWAS on GRCh37/hg19</a></li> <li><a href="../../cgi-bin/hgTrackUi?db=hg38&g=covidHgiGwas">COVID-19 GWAS on GRCh38/hg38</a></li> </ul> <div class="text-center"> <a href="../../cgi-bin/hgTracks?hgS_doOtherUser=submit&hgS_otherUserName=dschmelt&hgS_otherUserSessionName=covidGwas"> <img width="80%" height="80%" src="../../images/CovidGWAS.png" alt="The COVID-19 GWAS track shows variants as lollypops, with the colored head showing the p-value and the height of the stick showing effect size."></a> </div> <p>Our gratitude goes to the COVID-19 Host Genetics Initiative contributors and project leads for -making this data available and Kumar Veerapen at the Broad for their input during track -development. We would also like to thank Kate Rosenbloom, Daniel Schmelter, and Ana Benet-Pages for +making this data available, Kumar Veerapen, Rachel Liao, and Juha Karjalainen +at the Broad Institute for their input during track development. +We would also like to thank the UCSC Genome Browser staff Kate Rosenbloom, +Daniel Schmelter, Brain Raney, and Ana Benet-Pages for developing, staging, and documenting this track.</p> <h3>1000 Genomes Family Trios (Phased VCFs)</h3> <p> We are happy to share a new data set, 1000 Genomes Trios on hg38, and a visualization tool for displaying chromosome phased VCFs and family inheritance patterns. This track shows phased variants from seven trios of parents and child across different regions. You can infer which parent passed on which variant and identify possible de-Novo variants. The data was produced by <a href="https://www.internationalgenome.org/" target="_blank">International Genome Sample Resource (IGSR)</a> from sequence data generated by the <a href="https://www.internationalgenome.org/about" target="_blank">1000 Genomes Project</a>. For more information on the 1000 Genomes Trios track and the VCF Trio format, please visit the track description page and VCF help page: