7d43c2d37ecf3af7e749b575537717442135e2b3
lrnassar
  Mon May 4 09:34:38 2020 -0700
Adding CD8 RosettaMHC track refs #25482

diff --git src/hg/htdocs/goldenPath/newsarch.html src/hg/htdocs/goldenPath/newsarch.html
index bc33767..373df51 100755
--- src/hg/htdocs/goldenPath/newsarch.html
+++ src/hg/htdocs/goldenPath/newsarch.html
@@ -116,60 +116,64 @@
   <ul>
   <li>
   <a target="_blank" href="/cgi-bin/hgTrackUi?db=wuhCor1&c=NC_045512v2&g=kimTranscripts">
   Kim Transcripts</a> - This track shows predicted and experimental representations of the 
   SARS-CoV-2 transcriptome based on long-read Nanopore sequencing.</li>
   <li>
   <a target="_blank" href="/cgi-bin/hgTrackUi?db=wuhCor1&c=NC_045512v2&g=kimNp">
   Kim RNA Breakpoints</a> - This track shows the locations of RNA transcript breakpoints 
   as determined by Nanopore and DNA Nanoball MGISEQ sequencing.</li>
   <li>
   <a target="_blank" href="/cgi-bin/hgTrackUi?db=wuhCor1&c=NC_045512v2&g=kimRnaMod">
   Kim RNA Modifications</a> - This track shows the locations of RNA-modifications as 
   determined by Nanopore sequencing.</li>
   </ul></li>
 <li>
+<a target="_blank" href="/cgi-bin/hgTrackUi?db=wuhCor1&c=NC_045512v2&g=rosettaMhc">
+CD8 RosettaMHC</a> - This track includes 718 CD8 epitopes restricted to HLA-A*02:01 
+as predicted by NetMHCpan4.0 and RosettaMHC.</li>
+<li>
 <a target="_blank" href="/cgi-bin/hgTrackUi?db=wuhCor1&c=NC_045512v2&g=poranHla1">
 Poran HLA</a> - This track shows putative epitopes for CD4+ and CD8+ T cells whose HLA 
 binding properties cover over 99% for US, European, and Asian populations, for both 
 HLA-I and HLA-II.</li>
 <li>
 <a target="_blank" href="/cgi-bin/hgTrackUi?db=wuhCor1&c=NC_045512v2&g=targets">
 T-Reactive Epitopes</a> - This track shows T-cell reactive epitopes in patients and 
 donors as described by <a target="_blank" 
 href="https://www.medrxiv.org/content/10.1101/2020.04.17.20061440v1.full.pdf+html">
 Braun et al, 2020</a>.</li>
 <li>
 <a target="_blank" href="/cgi-bin/hgTrackUi?db=wuhCor1&c=NC_045512v2&g=strainCons119way">
 119-Way Coronavirus Alignment</a> - This track shows multiple alignments of 119 coronavirus 
 sequences, aligned to the SARS-CoV-2 reference. It includes both 2019/2020 outbreak sequences 
 and more distantly related vertebrate host sequences.</li>
 </ul>
 <p>
 We would like to thank the publication authors Abbott et al, Gordon et al, Rangan et al, 
 Poran et al, and Braun et al for making these data available. We would also like to thank 
 <a target="_blank" href="https://rfam.xfam.org/">Rfam</a>, <a target="_blank"
 href="https://www.rcsb.org/">PDB</a>, <a target="_blank" href="https://mammoth.bio/">
 Mammoth Biosciences</a>, the <a target="_blank" href="https://www.sabetilab.org/">
 Sabeti Lab</a> at the Broad Institute, and the <a target="_blank" href="http://sanjanalab.org/">
 Sanjana Lab</a> at New York University.</p>
 <p>
 Lastly, we would like to thank Kord Kober and Kiley Charbonneau from the <a target="_blank"
 href="https://kober.ucsf.edu/">Kober lab</a> at UCSF for their contributions to the 
-crowd-sourced data track, as well as David Haussler, Jason Fernandes, Manny Ares, Justin Sim, 
-Alinne Gonzalez Armenta, and the rest of the scientists at UCSC (and the Genome Browser) 
-for making these tracks possible.</p>
+crowd-sourced data track, as well as David Haussler, Jason Fernandes, Nikolaos Sgourakis, 
+Santrupti Nerli, Manny Ares, Justin Sim, Alinne Gonzalez Armenta, and the rest of the 
+scientists at UCSC (and the Genome Browser) for making these tracks possible.</p>
 
 <a name="042920"></a>
 <h2>Apr. 29, 2020 &nbsp;&nbsp; Updated NCBI RefSeq gene tracks for 43 assemblies</h2>
 <p>
 We are pleased to announce a combination of both updated and new
 <a href="https://www.ncbi.nlm.nih.gov/refseq/" target="_blank">
 NCBI RefSeq gene annotation</a> tracks for the
 following 43 assemblies:</p><br>
 <div class="container">
   <div class="row">
   <div class="col-sm-4">
   <ul>
         <li>African clawed frog <a href="../cgi-bin/hgTrackUi?db=xenLae2&g=refSeqComposite"
          target=_blank>(xenLae2)</a></li>
         <li>Armadillo <a href="../cgi-bin/hgTrackUi?db=dasNov3&g=refSeqComposite"