f43f1239645183b88a00b3de83f74fd5553e6ce1
max
  Thu Mar 12 07:52:35 2026 -0700
Add gnomAD STR genotype track under gnomadVariants supertrack

87 disease-associated STR loci from gnomAD v3.1.3, aggregated from
~1.4M individual genotypes (18,511 WGS samples, ExpansionHunter v5).
Includes allele frequency distributions and population breakdowns.
Added relatedTracks links to strVar supertrack, refs #35420, refs #36652

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>

diff --git src/hg/makeDb/trackDb/human/hg38/gnomad.ra src/hg/makeDb/trackDb/human/hg38/gnomad.ra
index a341a141a5a..847f6cf93dc 100644
--- src/hg/makeDb/trackDb/human/hg38/gnomad.ra
+++ src/hg/makeDb/trackDb/human/hg38/gnomad.ra
@@ -251,30 +251,44 @@
 bigDataUrl /gbdb/hg38/gnomAD/v4/cnv/gnomad.v4.1.cnv.all.bb
 shortLabel gnomAD Rare CNV Variants
 longLabel Genome Aggregation Database (gnomAD) - Rare CNV variants (<1% overall site frequency) v4.1
 dataVersion Release 4.1 (November 01, 2023)
 type bigBed 9 +
 itemRgb on
 visibility hide
 url https://gnomad.broadinstitute.org/variant/$$?dataset=gnomad_cnv_r4
 urlLabel gnomAD Copy number variants Browser
 filterLabel.svtype Type of Variation
 filterValues.svtype DEL|Deletion,DUP|Duplication
 searchIndex name
 mouseOver <b>Position</b>: $chrom:${chromStart}-${chromEnd}<br> <b>Size of variant</b>: ${svlen}<br> <b>Genes impacted by variant</b>: ${genes}<br> <b>Site frequency (non-neuro control samples)</b>: ${sf}
 html gnomadCNV
 
+track gnomadStr
+parent gnomadVariants on
+shortLabel gnomAD STR
+longLabel Genome Aggregation Database (gnomAD) - Short Tandem Repeat Genotypes at Disease-Associated Loci
+dataVersion gnomAD v3.1.3 STR genotypes (March 2025)
+type bigBed 9 +
+itemRgb on
+bigDataUrl /gbdb/hg38/gnomAD/gnomadStr.bb
+visibility pack
+url https://gnomad.broadinstitute.org/short-tandem-repeat/$$?dataset=gnomad_r3
+urlLabel View at gnomAD
+searchIndex name
+mouseOver $name: $motif repeat in $gene, $nSamples samples ($nPass PASS)
+html gnomadStr
 
 searchTable pliByTranscript
 searchType bigBed
 searchDescription gnomAD Loss of Function Metrics by Transcript
 
 searchTable pliByGene
 searchType bigBed
 searchDescription gnomAD Loss of Function Metrics by Gene
 
 searchName gnomadGenomesVariantsV3_1_1_displayName
 searchTable gnomadGenomesVariantsV3_1_1
 searchType bigBed
 searchDescription Genome Aggregation Database (gnomAD) Genome Variants v3.1.1
 termRegex ^chr([1-9][0-9]?|[XYM])-[0-9]+-.*