95b7be2e55bbb69c9a0e8666925830942c923639 dschmelt Fri Oct 25 13:54:24 2019 -0700 Adding news entry for hic and plat tracks #24273 #21784 diff --git src/hg/htdocs/goldenPath/newsarch.html src/hg/htdocs/goldenPath/newsarch.html index 9f1e3bf..ad02db6 100755 --- src/hg/htdocs/goldenPath/newsarch.html +++ src/hg/htdocs/goldenPath/newsarch.html @@ -39,57 +39,53 @@ </div> <div class="col-sm-3"> <ul> <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> <!-- ============= 2019 archived news ============= --> <a name="2019"></a> -<a name="102419"></a> -<h2>Oct. 24, 2019 New Hi-C heatmap tracks and Visualization Type</h2> +<a name="102519"></a> +<h2>Oct. 25, 2019 New Hi-C heatmap tracks</h2> <p> -We are pleased to announce a new heatmap visualization type to the UCSC Genome Browser. -These customizable heatmaps support Chromosome Conformation Capture (3C), Hi-C, and other -high-density interaction based sequencing methods. This is the next evolution of our support for -3C sequencing data, following the popular <a href=#081018>Interact format used in GeneHancer</a>. -They can be configured as square, triangular, or arc interactions. You can see examples of Hi-C -regulation tracks on hg19 or hg38 assemblies.</p> +We are pleased to announce two new Hi-C heatmap tracks now available on the Genome Browser for hg19 +and hg38. They can be configured as square, triangular, or arc interactions. These heatmaps will +soon be available to visualize custom data for Chromosome Conformation Capture (3C), Hi-C, and other +high-density interaction based sequencing methods. This feature will be the next evolution of our +support for 3C sequencing data, following the popular <a href=#081018>Interact format +used in GeneHancer</a>, which was made for low-density interactions. <ul> <li> <a href="../cgi-bin/hgTracks?db=hg19&hideTracks=1&knownGene=pack&rao2014Hic=full" target="_blank">Hi-C Heatmap Track on hg19</a></li> <li> <a href="../cgi-bin/hgTracks?db=hg38&hideTracks=1&knownGene=pack&hicAndMicroC=full" target="_blank">Hi-C Heatmap Track on hg38</a></li></ul> -<p> -This track type is available for use with user data as a Custom Track or Track Hub, with the -<code>type=hic</code> specification. This visualization is suitable for publications to show -DNA-DNA interactions which may indicate TADs and loop enhancer-promoter interations. -</p> + <p class="text-center"> <img class='text-center' src="../images/hicExample.png" width='600' alt="Example of a Hi-C Track"> </p> -<a name="102419b"></a> +<a name="102419"></a> <h2>Oct. 24, 2019 New Platinum Genomes VCF Track</h2> <p> -We are further pleased to announce the new Platinum Genomes VCF Tracks. These variant tracks +We are pleased to announce the new Platinum Genomes VCF Tracks. These variant tracks offer deeply seqeuenced and validated VCFs on both hg19 and hg38. This data was derived from consensus analysis of a 17-member family pedigree to reduce potential error. You can view the tracks below:</p> <ul> <li> <a href="../cgi-bin/hgTracks?db=hg19&hideTracks=1&knownGene=pack&platinumGenomes=pack" target="_blank">Platinum Genomes Track on hg19</a></li> <li> <a href="../cgi-bin/hgTracks?db=hg38&hideTracks=1&knownGene=pack&platinumGenomes=pack" target="_blank">Platinum Genomes Track on hg38</a></li></ul> <a name="101619"></a> <h2>Oct. 16, 2019 New GENCODE Genes tracks for human (V32) and mouse (VM23)</h2> <p> We are pleased to announce the release of updated GENCODE Genes annotation tracks for both the <a href="../cgi-bin/hgTracks?db=hg38&g=knownGene" target="_blank">hg38/GRCh38</a> and