66a5094b52b1b49a14b72ddd612f6f08257f4c92
lrnassar
  Fri Jan 24 11:03:50 2025 -0800
Staging the VarChat track, refs #35081

diff --git src/hg/makeDb/trackDb/human/trackDb.ra src/hg/makeDb/trackDb/human/trackDb.ra
index c5fa09cecb1..877d0aa0ba1 100644
--- src/hg/makeDb/trackDb/human/trackDb.ra
+++ src/hg/makeDb/trackDb/human/trackDb.ra
@@ -147,30 +147,31 @@
 group phenDis
 visibility hide
 color 0,100,0
 type bigBed 9 +
 release alpha
 mouseOverField trait
 bigDataUrl /gbdb/$D/bbi/phegeni.bb
 urls studyId=https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=$$ geneId1=https://www.ncbi.nlm.nih.gov/gene/?term=$$%5Buid%5D geneId2=https://www.ncbi.nlm.nih.gov/gene/?term=$$%5Buid%5D analysisId=https://www.ncbi.nlm.nih.gov/projects/SNP/gViewer/gView.cgi?aid=$$ catalogId=https://www.ebi.ac.uk/gwas/search?query=$$
 
 track varsInPubs
 shortLabel Variants in Papers
 longLabel Genetic Variants mentioned in scientific publications
 superTrack on
 group phenDis
 type bed 3
+pennantIcon Updated red ../goldenPath/newsarch.html#XXXXXX "Updated January XX, 2025"
 
         track mastermind
         shortLabel Mastermind Variants
         longLabel Genomenon Mastermind Variants extracted from full text publications
         visibility dense
         type bigBed 9 +
         urls url=$$
         bigDataUrl /gbdb/$D/bbi/mastermind.bb
         noScoreFilter on
         exonNumbers off
         mouseOverField _mouseOver
         itemRgb on
         filter.mmcnt1 0
         filter.mmcnt2 0
         filter.mmcnt3 0
@@ -181,30 +182,49 @@
 
         track avada
         shortLabel Avada Variants
         longLabel Avada Variants extracted from full text publications
         visibility dense
         type bigBed 9 +
         bigDataUrl /gbdb/$D/bbi/avada.bb
         noScoreFilter on
         exonNumbers off
         #itemRgb on
         dataVersion release 1
         parent varsInPubs pack
         urls pmid="https://www.ncbi.nlm.nih.gov/pubmed/$$" doi="https://doi.org/$$" ensId="http://grch37.ensembl.org/Homo_sapiens/Gene/Summary?g=$$" entrezs="https://www.ncbi.nlm.nih.gov/gene/$$" refSeq="https://www.ncbi.nlm.nih.gov/nuccore/$$"
         mouseOverField _mouseOver
 
+        track varChat
+        shortLabel enGenome VarChat
+        longLabel enGenome VarChat: Literature match and variant's summary
+        visibility dense
+        type bigBed 9 + 4
+        bigDataUrl /gbdb/$D/bbi/varChat.bb
+        noScoreFilter on
+        exonNumbers off
+        parent varsInPubs pack
+        maxWindowCoverage 40000
+        maxItems 1000000
+        mouseOverField _mouseOver
+        url https://varchat.engenome.com/search?source=ucsc&text=$<VariantUrl>
+        urlLabel Open Variant on VarChat
+        bedNameLabel Nucleotide Change
+        skipFields Variant,VariantUrl,score
+        detailsDynamicTable VariantDetails|Variant Details
+        pennantIcon New red ../goldenPath/newsarch.html#XXXXXX "Released January XX, 2025"
+
         track pubtator
         shortLabel PubTator rsIDs
         longLabel dbSNP Variants extracted by PubTator3
         visibility dense
         type bigBed 9 +
         bigDataUrl /gbdb/$D/pubs2/pubtatorDbSnp.bb
         noScoreFilter on
         exonNumbers off
         itemRgb on
         parent varsInPubs pack
         urls pubmedIds="https://www.ncbi.nlm.nih.gov/pubmed/$$"
         mouseOver ${summary} (Found in ${numPubmedIds} PubMed articles)
 
         track varaico
         release alpha