e7627f2c8a0215940699e390bf24a17cb60fdeec
gperez2
  Sun Aug 23 22:22:01 2026 -0700
Changing the v2/v4/v4.1 constraint subtracks to hide by default. Updating the pliByTranscriptV4_1_1's mouseOver, plus some other minor updates. refs #37351

diff --git src/hg/makeDb/trackDb/human/hg38/gnomad.constraint.alpha.ra src/hg/makeDb/trackDb/human/hg38/gnomad.constraint.alpha.ra
index 471c94b6989..beac4cbf381 100644
--- src/hg/makeDb/trackDb/human/hg38/gnomad.constraint.alpha.ra
+++ src/hg/makeDb/trackDb/human/hg38/gnomad.constraint.alpha.ra
@@ -1,221 +1,221 @@
 track gnomadPLI
 parent gnomadVariants 
 shortLabel gnomAD Constraint Metrics
 longLabel Genome Aggregation Database (gnomAD) Predicted Constraint Metrics (LOEUF, pLI, and Z-scores)
 compositeTrack On
 group varRep
 type bigBed 12
 labelFields name,geneName
 dataVersion Release v4.1.1 (March 30, 2026), Release v4.1 (April 19, 2024), Release v4 (November 2023), Release 2.1.1 (March 6, 2019)
 subGroup1 view Views v2=constraintV2 v4=constraintV4 v4_1=constraintV4.1 v4_1_1=constraintV4.1.1
 html gnomadPLI.html
 visibility hide
 
     track constraintV2
     parent gnomadPLI off
     shortLabel Constraint V2
     longLabel gnomAD Constraint Metrics V2
     view v2
     visibility pack
     type bigBed 12 +
 
         track pliByGene
         shortLabel Gene LoF
         longLabel gnomAD Predicted Loss of Function Constraint Metrics By Gene (LOEUF and pLI) v2.1.1
         subGroups view=v2
         type bigBed 12 +
         itemRgb on
         searchIndex name,geneName
         bigDataUrl /gbdb/hg38/gnomAD/pLI/pliByGene.bb
         url https://gnomad.broadinstitute.org/gene/$$?dataset=gnomad_r2_1
         urlLabel View this Gene on the gnomAD browser
         labelFields name,geneName
         defaultLabelFields geneName
         filter._pli 0:1
         filterLabel._pli Show only items between this pLI range
         filterByRange._pli on
-        parent constraintV2 on
+        parent constraintV2 off
         priority 1
         mouseOver LOEUF: $_loeuf<br> pLI: $_pli<br> $synonymous<br> $pLoF
 
         track missenseByGene
         shortLabel Gene Missense
         longLabel gnomAD Predicted Missense Constraint Metrics By Gene (Z-scores) v2.1.1
         subGroups view=v2
         type bigBed 12 +
         searchIndex name,geneName
         bigDataUrl /gbdb/hg38/gnomAD/pLI/missenseByGene.bb
         url https://gnomad.broadinstitute.org/gene/$$?dataset=gnomad_r2_1
         urlLabel View this Gene on the gnomAD browser
         labelFields name,geneName
         filter._zscore -19:11
         itemRgb on
         filterLabel._zscore Show only items between this Z-score range
         filterByRange._zscore on
         parent constraintV2 off
         priority 2
         mouseOver Z: $_zscore<br> $synonymous<br> $missense
 
         track pliByTranscript
         shortLabel Transcript LoF v2
         longLabel gnomAD Predicted Loss of Function Constraint Metrics By Transcript (LOEUF and pLI) v2.1.1
         subGroups view=v2
         type bigBed 12 +
         itemRgb on
         searchIndex name,geneName
         bigDataUrl /gbdb/hg38/gnomAD/pLI/pliByTranscript.bb
         url https://gnomad.broadinstitute.org/transcript/$$?dataset=gnomad_r2_1
         urlLabel View this Transcript on the gnomAD browser
         labelFields name,geneName
         filter._pli 0:1
         filterLabel._pli Show only items between this pLI range
         filterByRange._pli on
         parent constraintV2 off
         priority 2
         mouseOver LOEUF: $_loeuf<br> pLI: $_pli<br> $synonymous<br> $pLoF
 
         track missenseByTranscript
         shortLabel Transcript Missense v2
         longLabel gnomAD Predicted Missense Constraint Metrics By Transcript (Z-scores) v2.1.1
         subGroups view=v2
         type bigBed 12 +
         searchIndex name,geneName
         bigDataUrl /gbdb/hg38/gnomAD/pLI/missenseByTranscript.bb
         url https://gnomad.broadinstitute.org/transcript/$$?dataset=gnomad_r2_1
         urlLabel View this Transcript on the gnomAD browser
         labelFields name,geneName
         filter._zscore -20:11
         filterLabel._zscore Show only items between this Z-score range
         filterByRange._zscore on
         parent constraintV2 off
         priority 2
         mouseOver Z: $_zscore<br> $synonymous<br> $missense
 
     track constraintV4
     parent gnomadPLI off
     shortLabel Constraint V4
     longLabel gnomAD Constraint Metrics V4
     view v4
     visibility hide
     type bigBed 12 +
     
         track pliByTranscriptV4
         shortLabel Transcript LoF v4
         longLabel gnomAD Predicted Loss of Function Constraint Metrics By Transcript (LOEUF and pLI) v4
         subGroups view=v4
         type bigBed 12 +
         itemRgb on
         searchIndex name,geneName
         bigDataUrl /gbdb/hg38/gnomAD/pLI/pliByTranscript.v4.bb
         url https://gnomad.broadinstitute.org/transcript/$$?dataset=gnomad_r4
         urlLabel View this Transcript on the gnomAD browser
         labelFields name,geneName
         filter._pli 0:1
         filterLabel._pli Show only items between this pLI range
         filterByRange._pli on
-        parent constraintV4
+        parent constraintV4 off
         priority 2
         mouseOver LOEUF: $_loeuf<br> pLI: $_pli<br> $synonymous<br> $pLoF
 
         track missenseByTranscriptV4
         shortLabel Transcript Missense v4
         longLabel gnomAD Predicted Missense Constraint Metrics By Transcript (Z-scores) v4
         subGroups view=v4
         type bigBed 12 +
         searchIndex name,geneName
         bigDataUrl /gbdb/hg38/gnomAD/pLI/missenseByTranscript.v4.bb
         url https://gnomad.broadinstitute.org/transcript/$$?dataset=gnomad_r4
         urlLabel View this Transcript on the gnomAD browser
         labelFields name,geneName
         filter._zscore -20:11
         filterLabel._zscore Show only items between this Z-score range
         filterByRange._zscore on
-        parent constraintV4
+        parent constraintV4 off
         priority 2
         mouseOver Z: $_zscore<br> $synonymous<br> $missense
 
     track constraintV4_1
     parent gnomadPLI off
     shortLabel Constraint V4.1
     longLabel gnomAD Constraint Metrics V4.1
     view v4_1
     visibility pack
     type bigBed 12 +
 
         track pliByTranscriptV4_1
         shortLabel Transcript LoF v4.1
         longLabel gnomAD Predicted Loss of Function Constraint Metrics By Transcript (LOEUF and pLI) v4.1
         subGroups view=v4_1
         type bigBed 12 +
         itemRgb on
         searchIndex name,geneName
         bigDataUrl /gbdb/hg38/gnomAD/pLI/pliByTranscript.v4.1.bb
         url https://gnomad.broadinstitute.org/transcript/$$?dataset=gnomad_r4
         urlLabel View this Transcript on the gnomAD browser
         labelFields name,geneName
         filter._pli 0:1
         filterLabel._pli Show only items between this pLI range
         filterByRange._pli on
-        parent constraintV4_1
+        parent constraintV4_1 off
         priority 2
         mouseOver LOEUF: $_loeuf<br> pLI: $_pli<br> $synonymous<br> $pLoF
 
         track missenseByTranscriptV4_1
         shortLabel Transcript Missense v4.1
         longLabel gnomAD Predicted Missense Constraint Metrics By Transcript (Z-scores) v4.1
         subGroups view=v4_1
         type bigBed 12 +
         searchIndex name,geneName
         bigDataUrl /gbdb/hg38/gnomAD/pLI/missenseByTranscript.v4.1.bb
         url https://gnomad.broadinstitute.org/transcript/$$?dataset=gnomad_r4
         urlLabel View this Transcript on the gnomAD browser
         labelFields name,geneName
         filter._zscore -20:11
         filterLabel._zscore Show only items between this Z-score range
         filterByRange._zscore on
-        parent constraintV4_1
+        parent constraintV4_1 off
         priority 2
         mouseOver Z: $_zscore<br> $synonymous<br> $missense
 
     track constraintV4_1_1
     parent gnomadPLI off
     shortLabel Constraint V4.1.1
     longLabel gnomAD Constraint Metrics V4.1.1
     view v4_1_1
     visibility pack
     type bigBed 12 +
 
         track pliByTranscriptV4_1_1
         shortLabel Transcript LoF v4.1.1
         longLabel gnomAD Predicted Loss of Function Constraint Metrics By Transcript (LOEUF and pLI) v4.1.1
         subGroups view=v4_1_1
         type bigBed 12 +
         itemRgb on
         searchIndex name,geneName
         bigDataUrl /gbdb/hg38/gnomAD/pLI/pliByTranscript.v4.1.1.bb
         url https://gnomad.broadinstitute.org/transcript/$$?dataset=gnomad_r4
         urlLabel View this Transcript on the gnomAD browser
         labelFields name,geneName
         filter._pli 0:1
         filterLabel._pli Show only items between this pLI range
         filterByRange._pli on
         parent constraintV4_1_1
-        priority 1
-        mouseOver LOEUF: $_loeuf<br> pLI: $_pli<br> $synonymous<br> $pLoF<br> Gene flags: $geneFlags<br> Constraint flags: $constraintFlags
+        priority 1.5
+        mouseOver $_mouseOver<br> $synonymous<br> $pLoF<br> Constraint flags: $constraintFlags
 
         track missenseByTranscriptV4_1_1
         shortLabel Transcript Missense v4.1.1
         longLabel gnomAD Predicted Missense Constraint Metrics By Transcript (Z-scores) v4.1.1
         subGroups view=v4_1_1
         type bigBed 12 +
         searchIndex name,geneName
         bigDataUrl /gbdb/hg38/gnomAD/pLI/missenseByTranscript.v4.1.1.bb
         url https://gnomad.broadinstitute.org/transcript/$$?dataset=gnomad_r4
         urlLabel View this Transcript on the gnomAD browser
         labelFields name,geneName
         filter._zscore -20:11
         filterLabel._zscore Show only items between this Z-score range
         filterByRange._zscore on
         parent constraintV4_1_1
-        priority 1
+        priority 1.5
         mouseOver Z: $_zscore<br> $synonymous<br> $missense<br> Gene flags: $geneFlags<br> Constraint flags: $constraintFlags