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/human/snpArray.html src/hg/makeDb/trackDb/human/snpArray.html
index ec3d94b9cb0..2303f6f7021 100644
--- src/hg/makeDb/trackDb/human/snpArray.html
+++ src/hg/makeDb/trackDb/human/snpArray.html
@@ -103,41 +103,41 @@
 known cytogenetic importance. Backbone markers provide genome-wide marker spacing of 10kb. 
 This is supplemented with dense coverage (at 6 kb spacing average) of ~250 genomic regions 
 commonly studied in cytogenetics labs and targeted coverage in ~400 additional genes, 
 subtelomeric regions, pericentromeric regions, and sex chromosomes. 
 An efficiency-optimized tagging strategy provides a panel for GWAS 
 (70% coverage in CEU at r2 > 0.8) in the highest throughput and most cost-effective 
 whole-genome DNA Analysis BeadChip.
 
 <H2>References</H2>
 <P>
 
 More information on the Affymetrix arrays is available at these sites:
 <UL>
 <LI>
 Genome-Wide Human 
-<A HREF="http://www.affymetrix.com/estore/browse/products.jsp?productId=131533&categoryId=35642&productName=Genome-Wide-Human-SNP-Array-6.0" TARGET=_blank>
+<A HREF="https://www.affymetrix.com/estore/browse/products.jsp?productId=131533&categoryId=35642&productName=Genome-Wide-Human-SNP-Array-6.0" TARGET=_blank>
 SNP Array 6.0</A>.
 </LI>
 <LI>
 Genome-Wide Human 
-<A HREF="http://www.affymetrix.com/estore/browse/products.jsp?productId=131532&categoryId=35906&productName=Genome-Wide-Human-SNP-Array-5.0" TARGET=_blank>
+<A HREF="https://www.affymetrix.com/estore/browse/products.jsp?productId=131532&categoryId=35906&productName=Genome-Wide-Human-SNP-Array-5.0" TARGET=_blank>
 SNP Array 5.0</A>.
 </LI>
 <LI>
 Mapping 
-<A HREF="http://www.affymetrix.com/estore/browse/products.jsp?productId=131459&categoryId=35906&productName=GeneChip-Human-Mapping-500K-Array-Set" TARGET=_blank>
+<A HREF="https://www.affymetrix.com/estore/browse/products.jsp?productId=131459&categoryId=35906&productName=GeneChip-Human-Mapping-500K-Array-Set" TARGET=_blank>
 500K</A> Array Set.
 </LI>
 </UL>
 
 More information on the Illumina arrays is available at these sites:
 <UL>
 <LI>
 <A HREF="http://www.illumina.com/pages.ilmn?ID=261" TARGET=_blank>
 Human1M-Duo</A> Genotyping BeadChip.
 </LI>
 <LI>
 <A HREF="http://www.illumina.com/products/humanomni1_quad_beadchip_kits.ilmn" TARGET=_blank>
 HumanOmni1-Quad v1</A> Genotyping BeadChip.
 </LI>
 <LI>