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.alpha.ra src/hg/makeDb/trackDb/human/panelApp.alpha.ra deleted file mode 100644 index 2ea8c9b988d..00000000000 --- src/hg/makeDb/trackDb/human/panelApp.alpha.ra +++ /dev/null @@ -1,120 +0,0 @@ -track panelApp -shortLabel PanelApp -longLabel Genomics England and Australia PanelApp Diagnostics -type bigBed 9 + -visibility hide -group phenDis -compositeTrack on -noParentConfig on -showCfg on - - track panelAppGenes - parent panelApp on - 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/$$" - mouseOver <b>Gene:</b> $entityName<br><b>Panel:</b> $panelName<br><b>MOI:</b> $modeOfInheritance<br><b>Phenotypes: </b> $phenotypes<br><b>Confidence level:</b> $confidenceLevel - labelFields geneSymbol - skipEmptyFields on - skipFields chrom,chromStart,blockStarts,blockSizes,entityName,tags,status,mouseOverField - filterValues.confidenceLevel 3,2,1,0 - priority 1 - filter.panelVersion 1 - filterLabel.panelVersion Minimum panel version to display - - track panelAppCNVs - parent panelApp on - shortLabel PanelApp GE CNVs - longLabel Genomics England PanelApp CNV Regions - type bigBed 9 + - visibility pack - bigDataUrl /gbdb/$D/panelApp/cnv.bb - itemRgb on - urls omimGene="https://www.omim.org/entry/$$" 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> $confidenceLevel - skipFields chrom,chromStart,blockStarts,blockSizes - filterValues.confidenceLevel 3,2,1,0 - priority 2 - filter.versionCreated 1 - filterLabel.versionCreated Minimum panel version to display - - track panelAppTandRep - parent panelApp on - shortLabel PanelApp GE STRs - longLabel Genomics England PanelApp Short Tandem Repeats - type bigBed 9 + - visibility pack - bigDataUrl /gbdb/$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/$$" panelID="https://panelapp.genomicsengland.co.uk/panels/$$/" geneSymbol="https://panelapp.genomicsengland.co.uk/panels/entities/$$" - labelFields hgncSymbol - skipEmptyFields on - skipFields chrom,chromStart,blockStarts,blockSizes,mouseOverField - filterValues.confidenceLevel 3,2,1,0 - mouseOver <b>Gene name:</b> $geneName<br><b>Panel:</b> $name<br><b>MOI:</b> $modeOfInheritance<br><b>Phenotypes: </b> $phenotypes<br><b>Confidence level:</b> $confidenceLevel - priority 3 - filter.version 1 - filterLabel.version Minimum panel version to display - - track panelAppAusGenes - parent panelApp on - shortLabel PanelApp Australia Genes - longLabel PanelApp Australia Genes Panels - type bigBed 9 + - visibility pack - bigDataUrl /gbdb/$D/panelApp/genesAus.bb - url https://panelapp-aus.org/panels/$<panelID>/gene/$<geneSymbol>/ - urlLabel Link to PanelApp Australia - urls omimGene="https://www.omim.org/entry/$$" 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> $confidenceLevel - labelFields geneSymbol - skipEmptyFields on - skipFields chrom,chromStart,blockStarts,blockSizes,entityName,tags,status,mouseOverField - filterValues.confidenceLevel 3,2,1,0 - filter.panelVersion 0 - filterLabel.panelVersion Minimum panel version to display - priority 4 - - track panelAppAusCNVs - parent panelApp on - shortLabel PanelApp Australia CNVs - longLabel PanelApp Australia CNV Regions - type bigBed 9 + - visibility pack - bigDataUrl /gbdb/$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/$$" - labelFields entityName - skipEmptyFields on - skipFields chrom,chromStart,blockStarts,blockSizes - mouseOver <b>Gene:</b> $entityName<br><b>Panel:</b> $panelName<br><b>MOI:</b> $modeOfInheritance<br><b>Phenotypes: </b> $phenotypes<br><b>Confidence level:</b> $confidenceLevel - filterValues.confidenceLevel 3,2,1,0 - filter.versionCreated 0 - filterLabel.versionCreated Minimum panel version to display - priority 5 - - track panelAppAusTandRep - parent panelApp on - shortLabel PanelApp Australia STRs - longLabel PanelApp Australia Short Tandem Repeats - type bigBed 9 + - visibility pack - bigDataUrl /gbdb/$D/panelApp/tandRepAus.bb - itemRgb on - urls omimGene="https://www.omim.org/entry/$$" 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