b48890099442a18e42a8fcb24c0ab66f9278762a
jnavarr5
Wed May 21 16:32:09 2025 -0700
Announcing the Varaico track for hg38 and hg19, refs #34595
diff --git src/hg/makeDb/trackDb/human/trackDb.ra src/hg/makeDb/trackDb/human/trackDb.ra
index 3dead0c664b..5da03449c7e 100644
--- src/hg/makeDb/trackDb/human/trackDb.ra
+++ src/hg/makeDb/trackDb/human/trackDb.ra
@@ -145,31 +145,31 @@
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=$$
track varsInPubs
shortLabel Variants in Papers
longLabel Genetic Variants mentioned in scientific publications
superTrack on
group phenDis
type bed 3
-pennantIcon Updated red ../goldenPath/newsarch.html#022425 "Updated Feb. 24, 2025"
+pennantIcon Updated red ../goldenPath/newsarch.html#052125 "Updated May 21, 2025"
track mastermind
shortLabel Mastermind Variants
longLabel Genomenon Mastermind Variants extracted from full text publications
visibility dense
type bigBed 9 +
urls url=$$
bigDataUrl /gbdb/$D/bbi/mastermind.bb
noScoreFilter on
exonNumbers off
mouseOverField _mouseOver
itemRgb on
filter.mmcnt1 0
filter.mmcnt2 0
filter.mmcnt3 0
@@ -230,30 +230,31 @@
html varsInPubs.html
track varaico
shortLabel Varaico Variants
longLabel Varaico Variants extracted from full text publications, titles, and abstracts
visibility dense
type bigBed 9 +
bigDataUrl /gbdb/$D/bbi/varaico.bb
noScoreFilter on
exonNumbers off
# itemRgb on
dataVersion release 1
parent varsInPubs pack
urls outlink="$$" selectedPmid="https://www.ncbi.nlm.nih.gov/pubmed/$$" rgene="https://www.ncbi.nlm.nih.gov/nuccore/$$"
mouseOver $hgncSymbol $variantOrigStrs in: $author ($journal, $year) - $title
Number of publications: $pmidCount
Variant Effect: $variantEffect
+ pennantIcon New red ../goldenPath/newsarch.html#052125 "Released May 21, 2025"
html varsInPubs.html
track caseControl
compositeTrack on
shortLabel Case Control
longLabel Case Control Consortium
group phenDis
visibility hide
type chromGraph
minMax 0,15
linesAt 5,10
track cccTrendPvalBd
parent caseControl
shortLabel CCC Bipolar Dis