e3d601464631aeaf43868bdc1924ae7495222a2f
dschmelt
  Wed Mar 16 11:31:45 2022 -0700
Code review minor edits #29100

diff --git src/hg/makeDb/trackDb/human/panelApp.html src/hg/makeDb/trackDb/human/panelApp.html
index f1c4fd6..8a2f1f4 100644
--- src/hg/makeDb/trackDb/human/panelApp.html
+++ src/hg/makeDb/trackDb/human/panelApp.html
@@ -1,91 +1,91 @@
 <h2>Description</h2>
 <p>
 The
 <a target="_blank" href="https://panelapp.genomicsengland.co.uk/#!">Genomics England PanelApp</a>
 tracks show virtual gene panels related to human disorders. Originally developed to
 aid interpretation of participant genomes in the
 <a href="https://www.genomicsengland.co.uk/initiatives/100000-genomes-project"
 target="_blank">100,000 Genomes Project</a>, PanelApp is now also being used as the platform for
 achieving consensus on gene panels in the
 <a target="_blank" href="https://www.england.nhs.uk/genomics/nhs-genomic-med-service/">
 NHS Genomic Medicine Service (GMS)</a>.
 As panels in PanelApp are publicly available, they can also be used by other groups
 and projects. Panels are maintained and updated by
 <a target="_blank" href="https://www.genomicsengland.co.uk/">Genomics England</a> curators.
 <p>
 Genes and genomic entities (short tandem repeats/STRs and copy number variants/CNVs)
 have been reviewed by experts to enable a community consensus to be reached on which
 genes and genomic entities should appear on a <b>diagnostics grade panel</b> for each disorder.
 A <b>rating system</b> (confidence level 0 - 3) is used to classify the level of evidence
 supporting association with phenotypes covered by the gene panel in question.
 </p>
 <p>
 The available data tracks are: 
 </p>
 
 <!--#insert file="$db/panelAppTracks.html"-->
 
 <h2>Display Conventions</h2>
 <p>
 The individual tracks are colored by <b>confidence level:</b>
 
 <ul>
 <li><b><font color="#32CD32">Score 3 (lime green)</font></b> - <b>High level of evidence</b> 
 for this gene-disease association. Demonstrates confidence that this gene should be 
 used for genome interpretation.</li>
 <li><b><font color="#FFBF00">Score 2 (amber)</font></b> - <b>Moderate evidence</b> 
 for this gene-disease association. This gene should not be used for genomic 
 interpretation.</li>
 <li><b><font color="red">Score 0 or 1 (red)</font></b> - <b>Not enough evidence</b> 
 for this gene-disease association. This gene should not be used for 
 genomic interpretation. </li>
 </ul>
 <p>
-Mouseover on items shows the gene name, confidence level, mode of inheritance 
-(if known) and phenotypes related to the gene. supporting evidence of 
-dosage sensitivity. Tracks can be filtered according to the confidence 
+Mouseover on items shows the gene name, panel associated, mode of inheritance 
+(if known), phenotypes related to the gene, and confidence level. Tracks can 
+be filtered according to the confidence 
 level of disease association evidence. For more information on 
-the use of this data see the PanelApp
+the use of this data, see the PanelApp
 <a target="_blank" href="https://panelapp.genomicsengland.co.uk/#!FAQs">FAQs</a>.
 </p>
 
 <h2>Data Access</h2>
 <p>
 The raw data can be explored interactively with the
 <a target="_blank" href="https://genome.ucsc.edu/cgi-bin/hgTables">Table Browser</a> or the 
 <a target="_blank" href="https://genome.ucsc.edu/cgi-bin/hgIntegrator">Data Integrator</a>.
 For automated analysis, the data may be queried from our 
 <a target="_blank" href="https://genome.ucsc.edu/goldenPath/help/api.html">REST API</a>. 
 Please refer to our 
 <a target="_blank" href="https://groups.google.com/a/soe.ucsc.edu/forum/#!forum/genome">
 mailing list archives</a> for questions, or our 
 <a target="_blank" href="https://genome.ucsc.edu/FAQ/FAQdownloads.html#downloads36">
 Data Access FAQ</a> for more information.
 </p>
 <p>
 Data is also freely available on the 
 <a target="_blank" href="https://panelapp.genomicsengland.co.uk/#!API">Panel App API</a>.
 </p>
 
 <h2>Methods</h2>
 <p>
 PanelApp files were reformatted at UCSC to the <a target="_blank" 
 href="https://genome.ucsc.edu/goldenPath/help/bigBed.html">bigBed</a> format. 
 </p>
 
 <h2>Credits</h2>
 <p>
 Thank you to Genomics England PanelApp, especially Catherine Snow for technical
 coordination and consultation, and to Beagan Nguy, Christopher Lee, Daniel Schmelter
 and Anna Benet-Pages of the Genome Browser team.
 </p>
 
 <h2>Reference</h2>
 <p>
     Martin AR, Williams E, Foulger RE, Leigh S, Daugherty LC, Niblock O, Leong IUS, Smith KR,
     Gerasimenko O, Haraldsdottir E <em>et al</em>.
     <a href="https://www.ncbi.nlm.nih.gov/pubmed/31676867" target="_blank">
     PanelApp crowdsources expert knowledge to establish consensus diagnostic gene panels</a>.
     <em>Nat Genet</em>. 2019 Nov;51(11):1560-1565.
     PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/31676867" target="_blank">31676867</a>
 </p>