3dc3896e5b42dae8c1c50c4a8ddc46ffeab3bf4f dschmelt Tue Jul 9 13:54:02 2019 -0700 adding crisprAll announcements #23514 diff --git src/hg/htdocs/goldenPath/newsarch.html src/hg/htdocs/goldenPath/newsarch.html index 588e44a..c3d4cda 100755 --- src/hg/htdocs/goldenPath/newsarch.html +++ src/hg/htdocs/goldenPath/newsarch.html @@ -39,32 +39,49 @@ </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="070919"></a> +<h2>Jul. 9, 2019 Expanded CRISPR track released for human (hg19/GRCh37)</h2> +<p> +We are pleased to announce the release of an expanded <a href="http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg19&hideTracks=1&knownGene=pack&crisprAllTargets=pack&position=chr7:116397500-116398000" target="_blank">CRISPR Targets track</a> for the human +hg19/GRCh37 assembly. This track shows the DNA sequences targetable by CRISPR RNA guides +using the Cas9 enzyme from S. pyogenes (PAM: NGG) over the entire human genome. CRISPR target +sites were annotated with predicted specificity (off-target effects) and predicted efficiency +(on-target cleavage) by various algorithms through the tool +<a href="http://crispor.tefor.net/" target="_blank">CRISPOR</a>. +</p> +<p class="text-center"> + <img class='text-center' src="../images/crisprAll.png" width='850' alt="CrisprAllTargets track"> +</p> +<p> +We would like to thank Maximilian Haeussler, Hiram Clawson, and Daniel Schmelter for their effort +creating, developing, and releasing this data track.</p> + <a name="070119"></a> -<h2>Jul. 1, 2019   New DGV Gold Standard track for human (GRCh19/hg19)</h2> +<h2>Jul. 1, 2019 New DGV Gold Standard track for human (GRCh19/hg19)</h2> <p> We are pleased to announce the DGV Gold Standard track for human (GRCh19/hg19). This track displays copy number variants (CNVs), insertions/deletions (InDels), inversions and inversion breakpoints annotated by the <a href="http://dgv.tcag.ca/dgv/app/home" target="_blank">Database of Genomic Variants</a> (DGV). The initial criteria for the Gold Standard set require that a variant be found in at least two different studies and found in at least two different samples. After filtering out low-quality variants, the remaining variants are clustered according to 50% minimum overlap, and then merged into a single record. Gains and losses are merged separately. </p> <p> The <a href="https://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=dgvPlus" target="_blank">DGV Gold Standard track</a> utilizes a boxplot-like display to represent the merging of records. The highest ranking variant in the cluster defines the inner "box", while the outer lines define the outermost start and stop coordinates of the CNV. In this way, the inner box forms a high-confidence CNV location and the