be9c66b2a69ce9479e4830f5a0d36d9a26d67969
mspeir
  Sun Feb 16 10:50:26 2025 -0800
very minor formatting changes for desc page, refs #32269

diff --git src/hg/makeDb/trackDb/human/alphaMissense.html src/hg/makeDb/trackDb/human/alphaMissense.html
index 316cb195b86..315cbaa8b4f 100644
--- src/hg/makeDb/trackDb/human/alphaMissense.html
+++ src/hg/makeDb/trackDb/human/alphaMissense.html
@@ -71,46 +71,53 @@
 <a href="../cgi-bin/hgTables">Table Browser</a> or the
 <a href="../cgi-bin/hgIntegrator">Data Integrator</a>.
 </p>
 
 <p>
 For automated download and analysis, the genome annotation is stored at UCSC in
 <a href="../goldenPath/help/bigWig.html">bigWig</a> format that can be downloaded from
 <a href="http://hgdownload.soe.ucsc.edu/gbdb/$db/alphaMissense/"
 target="_blank">our download server</a>.
 The files for this track are called <tt>a.bw, c.bw, g.bw, t.bw</tt>. Individual
 regions or the whole genome annotation can be obtained using our tool <tt>bigWigToWig</tt>
 which can be compiled from the source code or downloaded as a precompiled
 binary for your system.  Instructions for downloading source code and binaries can be found
 <a href="http://hgdownload.soe.ucsc.edu/downloads.html#utilities_downloads">here</a>.
 For example, to extract only annotations in a given region, you could use the following command:
+</p>
+
 <p>
 <tt>bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/$db/alphaMissense/a.bw stdout</tt>
 </p>
 
 <h2>Methods</h2>
 
 <p>
 Data were converted from the files provided on
 <a href="https://storage.cloud.google.com/dm_alphamissense"
 target = "_blank">the AlphaMissense Downloads website</a>. As with all other tracks,
 a full log of all commands used for the conversion is available in our 
-<a target=_blank href="https://github.com/ucscGenomeBrowser/kent/blob/master/src/hg/makeDb/doc/">source repository</a>, for <a target=_blank href="https://raw.githubusercontent.com/ucscGenomeBrowser/kent/master/src/hg/makeDb/doc/hg19.txt">hg19</a> and <a target=_blank href="https://github.com/ucscGenomeBrowser/kent/blob/master/src/hg/makeDb/doc/hg38/alphaMissense.txt">hg38</a>. The release used for each assembly is shown on the track description page.
-
+<a target=_blank
+href="https://github.com/ucscGenomeBrowser/kent/blob/master/src/hg/makeDb/doc/">source
+repository</a>, for <a target=_blank
+href="https://raw.githubusercontent.com/ucscGenomeBrowser/kent/master/src/hg/makeDb/doc/hg19.txt">hg19</a>
+and <a target=_blank
+href="https://github.com/ucscGenomeBrowser/kent/blob/master/src/hg/makeDb/doc/hg38/alphaMissense.txt">hg38</a>.
+The release used for each assembly is shown on the track description page.
 </p>
 
 <h2>Credits</h2>
 <p>
 Thanks to 
 </p>
 
 <h2>References</h2>
 <p>
 Cheng J, Novati G, Pan J, Bycroft C, &#381;emgulyt&#279; A, Applebaum T, Pritzel A, Wong LH,
 Zielinski M, Sargeant T <em>et al</em>.
-<a href="https://www.science.org/doi/abs/10.1126/science.adg7492?url_ver=Z39.88-2003&amp;rfr_id=ori:
-rid:crossref.org&amp;rfr_dat=cr_pub%20%200pubmed" target="_blank">
-Accurate proteome-wide missense variant effect prediction with AlphaMissense</a>.
+<a href="https://www.science.org/doi/abs/10.1126/science.adg7492"
+target="_blank">Accurate proteome-wide missense variant effect prediction with
+AlphaMissense</a>.
 <em>Science</em>. 2023 Sep 22;381(6664):eadg7492.
 PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/37733863" target="_blank">37733863</a>
 </p>