9bc72b8d97e6fdd1f64881e08db9e9ac33d26bd3
gperez2
  Fri Aug 8 14:05:51 2025 -0700
Releasing and announcing the PanelApp Australia track, refs #35758

diff --git src/hg/makeDb/trackDb/human/panelApp.ra src/hg/makeDb/trackDb/human/panelApp.ra
index 97e65d61e78..87c14234908 100644
--- src/hg/makeDb/trackDb/human/panelApp.ra
+++ src/hg/makeDb/trackDb/human/panelApp.ra
@@ -1,53 +1,121 @@
 track panelApp
 shortLabel PanelApp
-longLabel Genomics England PanelApp Diagnostics
+longLabel Genomics England and Australia PanelApp Diagnostics
 type bigBed 9 +
 visibility hide
 group phenDis
 compositeTrack on
+noParentConfig on
+showCfg on
+pennantIcon Updated red ../goldenPath/newsarch.html#080825 "PanelApp Australia released Aug. 08, 2025"
 
     track panelAppGenes
     parent panelApp on
-    shortLabel PanelApp Genes
+    shortLabel PanelApp GE Genes
     longLabel Genomics England PanelApp Genes
     type bigBed 9 +
     visibility pack
     bigDataUrl /gbdb/$D/panelApp/genes.bb
     itemRgb on
     url https://panelapp.genomicsengland.co.uk/panels/$<panelID>/gene/$<geneSymbol>/
     urlLabel Link to PanelApp
     urls omimGene="https://www.omim.org/entry/$$" ensemblGenes="https://ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=$$" hgncID="https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:$$" panelID="https://panelapp.genomicsengland.co.uk/panels/$$/" geneSymbol="https://panelapp.genomicsengland.co.uk/panels/entities/$$"
-    mouseOverField mouseOverField
+    mouseOver <b>Gene:</b> $entityName<br><b>Panel:</b> $panelName<br><b>MOI:</b> $modeOfInheritance<br><b>Phenotypes: </b> $phenotypes<br><b>Confidence level:</b> $confidenceLevel
     labelFields geneSymbol
     skipEmptyFields on
     skipFields chrom,chromStart,blockStarts,blockSizes,entityName,tags,status,mouseOverField
     filterValues.confidenceLevel 3,2,1,0
+    priority 1
+    filter.panelVersion 1
+    filterLabel.panelVersion Minimum panel version to display
+
+    track panelAppCNVs
+    parent panelApp on
+    shortLabel PanelApp GE CNVs
+    longLabel Genomics England PanelApp CNV Regions
+    type bigBed 9 +
+    visibility pack
+    bigDataUrl /gbdb/$D/panelApp/cnv.bb
+    itemRgb on
+    urls omimGene="https://www.omim.org/entry/$$" panelID="https://panelapp.genomicsengland.co.uk/panels/$$/" entityName="https://panelapp.genomicsengland.co.uk/panels/entities/$$"
+    labelFields entityName
+    skipEmptyFields on
+    mouseOver <b>Gene:</b> $entityName<br><b>Panel:</b> $panelName<br><b>MOI:</b> $modeOfInheritance<br><b>Phenotypes: </b> $phenotypes<br><b>Confidence level:</b> $confidenceLevel
+    skipFields chrom,chromStart,blockStarts,blockSizes
+    filterValues.confidenceLevel 3,2,1,0
+    priority 2
+    filter.versionCreated 1
+    filterLabel.versionCreated Minimum panel version to display
 
     track panelAppTandRep
     parent panelApp on
-    shortLabel PanelApp STRs
+    shortLabel PanelApp GE STRs
     longLabel Genomics England PanelApp Short Tandem Repeats
     type bigBed 9 +
     visibility pack
     bigDataUrl /gbdb/$D/panelApp/tandRep.bb
     itemRgb on
-    urls omimGene="https://www.omim.org/entry/$$" ensemblID="https://ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=$$" hgncID="https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:$$" panelID="https://panelapp.genomicsengland.co.uk/panels/$$/" geneSymbol="https://panelapp.genomicsengland.co.uk/panels/entities/$$"
-    mouseOverField mouseOverField
+    urls omimGene="https://www.omim.org/entry/$$" ensemblID="https://ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=$$" hgncID="https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/$$" panelID="https://panelapp.genomicsengland.co.uk/panels/$$/" geneSymbol="https://panelapp.genomicsengland.co.uk/panels/entities/$$"
     labelFields hgncSymbol
     skipEmptyFields on
     skipFields chrom,chromStart,blockStarts,blockSizes,mouseOverField
     filterValues.confidenceLevel 3,2,1,0
+    mouseOver <b>Gene name:</b> $geneName<br><b>Panel:</b> $name<br><b>MOI:</b> $modeOfInheritance<br><b>Phenotypes: </b> $phenotypes<br><b>Confidence level:</b> $confidenceLevel
+    priority 3
+    filter.version 1
+    filterLabel.version Minimum panel version to display
 
-    track panelAppCNVs
+    track panelAppAusGenes
     parent panelApp on
-    shortLabel PanelApp CNVs
-    longLabel Genomics England PanelApp CNV Regions
+    shortLabel PanelApp Australia Genes
+    longLabel PanelApp Australia Genes Panels
     type bigBed 9 +
     visibility pack
-    bigDataUrl /gbdb/$D/panelApp/cnv.bb
+    bigDataUrl /gbdb/$D/panelApp/genesAus.bb
+    url https://panelapp-aus.org/panels/$<panelID>/gene/$<geneSymbol>/
+    urlLabel Link to PanelApp Australia
+    urls omimGene="https://www.omim.org/entry/$$" ensemblGenes="https://ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=$$" hgncID="https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:$$" panelID="https://panelapp-aus.org/panels/$$/" geneSymbol="https://panelapp-aus.org/panels/entities/$$"
+    mouseOver <b>Gene:</b> $entityName<br><b>Panel:</b> $panelName<br><b>MOI:</b> $modeOfInheritance<br><b>Phenotypes: </b> $phenotypes<br><b>Confidence level:</b> $confidenceLevel
+    labelFields geneSymbol
+    skipEmptyFields on
+    skipFields chrom,chromStart,blockStarts,blockSizes,entityName,tags,status,mouseOverField
+    filterValues.confidenceLevel 3,2,1,0
+    filter.panelVersion 0
+    filterLabel.panelVersion Minimum panel version to display
+    priority 4
+
+    track panelAppAusCNVs
+    parent panelApp on
+    shortLabel PanelApp Australia CNVs
+    longLabel PanelApp Australia CNV Regions
+    type bigBed 9 +
+    visibility pack
+    bigDataUrl /gbdb/$D/panelApp/cnvAus.bb
     itemRgb on
-    urls omimGene="https://www.omim.org/entry/$$" panelID="https://panelapp.genomicsengland.co.uk/panels/$$/" entityName="https://panelapp.genomicsengland.co.uk/panels/entities/$$"
+    urls omimGene="https://www.omim.org/entry/$$" panelID="https://panelapp-aus.org/panels/$$/" entityName="https://panelapp-aus.org/panels/entities/$$"
     labelFields entityName
     skipEmptyFields on
     skipFields chrom,chromStart,blockStarts,blockSizes
+    mouseOver <b>Gene:</b> $entityName<br><b>Panel:</b> $panelName<br><b>MOI:</b> $modeOfInheritance<br><b>Phenotypes: </b> $phenotypes<br><b>Confidence level:</b> $confidenceLevel
+    filterValues.confidenceLevel 3,2,1,0
+    filter.versionCreated 0
+    filterLabel.versionCreated Minimum panel version to display
+    priority 5
+
+    track panelAppAusTandRep
+    parent panelApp on
+    shortLabel PanelApp Australia STRs
+    longLabel PanelApp Australia Short Tandem Repeats
+    type bigBed 9 +
+    visibility pack
+    bigDataUrl /gbdb/$D/panelApp/tandRepAus.bb
+    itemRgb on
+    urls omimGene="https://www.omim.org/entry/$$" ensemblID="https://ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=$$" hgncID="https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/$$" panelID="https://panelapp-aus.org/panels/$$/" geneSymbol="https://panelapp-aus.org/panels/entities/$$"
+    mouseOver <b>Gene name:</b> $geneName<br><b>Panel:</b> $name<br><b>MOI:</b> $modeOfInheritance<br><b>Phenotypes: </b> $phenotypes<br><b>Confidence level:</b> $confidenceLevel
+    labelFields hgncSymbol
+    skipEmptyFields on
+    skipFields chrom,chromStart,blockStarts,blockSizes,mouseOverField
     filterValues.confidenceLevel 3,2,1,0
+    priority 6
+    filter.version 0
+    filterLabel.version Minimum panel version to display