ebccdd48004d96aa3d5dce2d4bd4f493e86b0e4f
lrnassar
  Fri Aug 29 19:06:39 2025 -0700
Updating panelApp Aus to include all gene panels but display only the two curated ones by default, refs #36219

diff --git src/hg/makeDb/trackDb/human/panelApp.ra src/hg/makeDb/trackDb/human/panelApp.ra
index 87c14234908..982c9e11f9e 100644
--- src/hg/makeDb/trackDb/human/panelApp.ra
+++ src/hg/makeDb/trackDb/human/panelApp.ra
@@ -70,30 +70,34 @@
     shortLabel PanelApp Australia Genes
     longLabel PanelApp Australia Genes Panels
     type bigBed 9 +
     visibility pack
     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
+    filterValues.panelName Mendeliome,Incidentalome,Intellectual disability syndromic and non-syndromic,Fetal anomalies,Genomic newborn screening: BabyScreen+
+    filterValuesDefault.panelName Mendeliome,Incidentalome
+    filterLabel.panelName Panel Name (only 5 common shown, use all to display all panels)
+    filterValues.modeOfInheritance BIALLELIC,, autosomal or pseudoautosomal|BIALLELIC (autosomal/pseudoautosomal),MONOALLELIC,, autosomal or pseudoautosomal,, imprinted status unknown|MONOALLELIC (autosomal/pseudoautosomal) imprinted status unknown,MONOALLELIC,, autosomal or pseudoautosomal,, maternally imprinted (paternal allele expressed)|MONOALLELIC (autosomal/pseudoautosomal) maternally imprinted (paternal allele expressed),MONOALLELIC,, autosomal or pseudoautosomal,, paternally imprinted (maternal allele expressed)|MONOALLELIC (autosomal/pseudoautosomal) paternally imprinted (maternal allele expressed),MONOALLELIC,, autosomal or pseudoautosomal,, NOT imprinted|MONOALLELIC (autosomal/pseudoautosomal) NOT imprinted,BOTH monoallelic and biallelic,, autosomal or pseudoautosomal|BOTH monoallelic/biallelic (autosomal/pseudoautosomal),BOTH monoallelic and biallelic (but BIALLELIC mutations cause a more SEVERE disease form),, autosomal or pseudoautosomal|BOTH monoallelic/biallelic (but BIALLELIC mutations more SEVERE)(autosomal/pseudoautosomal),X-LINKED: hemizygous mutation in males,, biallelic mutations in females|X-LINKED: hemizygous mutation in males,, biallelic mutations in females,X-LINKED: hemizygous mutation in males,, monoallelic mutations in females may cause disease (may be less severe,, later onset than males)|X-LINKED: hemizygous mutation in males,, monoallelic mutations in females may cause disease,MITOCHONDRIAL|MITOCHONDRIAL,Other|Other,Unknown|Unknown
     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/$$" panelID="https://panelapp-aus.org/panels/$$/" 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