089c09e98db52e92da694ab1a0c8891c1a7fd3e8
gperez2
  Thu Apr 2 15:50:07 2026 -0700
Fix broken external links in trackDb HTML docs found by uiLinks cron (2026-03-23 run).

Updated 261 trackDb HTML and .ra files:
- Fixed 404s: replaced dead URLs (sequenceontology.org wiki, compgen.cshl.edu PDFs,
chori.org, PolyPhen v1, uswest.ensembl.org, RIKEN GSC) with current locations;
removed links for defunct sites (snpdata.cshl.edu, zfrhmaps, renlab encode3 download,
oia.gachon.ac.kr, phylohmm.pdf across 92 conservation track docs).
- Fixed 301s: updated http→https (encodeproject.org, flybase.org, gene-regulation.com,
drive5.com/muscle, microbesonline.org/fasttree, brain-map.org); updated moved domains
(blackwell-synergy→wiley, genome.cshlp.org path fix, sanger.ac.uk path fix);
removed hijacked domains (seqll.com, orfeomecollaboration.org, farnhamlab.com).
- Fixed 302s: updated http→https (ensembl.org, affymetrix.com, asntech.org,
cdna.eva.mpg.de, arcseqhub.com); updated moved domains (dfam.janelia.org→dfam.org,
hmmer.janelia.org→hmmer.org, immuneepitope.org→iedb.org, ensembl variation path).

No RM.

diff --git src/hg/makeDb/trackDb/snp.html src/hg/makeDb/trackDb/snp.html
index a6635cbb397..c4195cae344 100644
--- src/hg/makeDb/trackDb/snp.html
+++ src/hg/makeDb/trackDb/snp.html
@@ -202,32 +202,31 @@
       that has not been implemented. For now, you can find this set of
       variations in &quot;rs_chNotOn&quot; on the <A
       HREF="ftp://ftp.ncbi.nih.gov/snp/" TARGET=_blank>dbSNP ftp
       site</A>.  
     </LI>
   </UL>
 <P>
   The heuristics for the non-SNP variations (i.e. named elements and
   short tandem repeats (STRs)) are quite conservative; therefore, some of 
   these are probably lost. This approach was chosen to avoid false 
   annotation of variation in inappropriate locations.
 </P>
 
 <H2>Credits and Data Use Restrictions</H2>
 <P>
-  Thanks to the <A HREF="http://snpdata.cshl.edu/" TARGET=_blank>SNP
-  Consortium</A> and <A HREF="https://www.ncbi.nlm.nih.gov"
+  Thanks to the SNP Consortium and <A HREF="https://www.ncbi.nlm.nih.gov"
   TARGET=_blank>NIH</A> for providing the public data, which are
   available from <A HREF="https://www.ncbi.nlm.nih.gov/SNP"
   TARGET=_blank>dbSnp</A> at NCBI.
 </P>
 <P>
   Thanks to <A HREF="https://www.thermofisher.com/us/en/home/life-science/microarray-analysis.html" TARGET=_blank>Affymetrix, Inc.</A> 
   for developing the genotyping arrays. Please see the 
   <A HREF="https://www.affymetrix.com:443/site/terms.affx"
   TARGET=_blank>Terms and Conditions</A> page on the Affymetrix
   website for restrictions on the use of their data.
   For more details on the Affymetrix genotyping assay, see the supplemental 
   information on the 
   <A HREF="https://assets.thermofisher.com/TFS-Assets/LSG/brochures/10k2_datasheet.pdf"
   TARGET=_blank>Affymetrix 10K SNP</A> and 
   <A HREF="https://www.thermofisher.com/us/en/home/life-science/microarray-analysis/microarray-data-analysis/microarray-analysis-sample-data/genotyping-allele-frequency-data.html"