f4d967492fedb59d2e528cf196e35c1da248ae96
lrnassar
Fri Oct 2 07:15:47 2026 -0700
Quarterly pennant cleanup: removing New/Updated pennantIcons released before July 2026 (strVar, nmd, promoterAi, primateAi, mpra, varaico). No RM.
diff --git src/hg/makeDb/trackDb/human/trackDb.ra src/hg/makeDb/trackDb/human/trackDb.ra
index 67435e4ea2b..dab1b7f4cb2 100644
--- src/hg/makeDb/trackDb/human/trackDb.ra
+++ src/hg/makeDb/trackDb/human/trackDb.ra
@@ -150,31 +150,30 @@
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=$$
track varsInPubs
shortLabel Variants in Papers
longLabel Genetic Variants mentioned in scientific publications
superTrack on
group phenDis
type bed 3
-pennantIcon Updated red ../goldenPath/newsarch.html#062526 "Updated Varaico Variants and Varaico Variants (suppl) tracks to Release 3 Jun. 25, 2026"
track mastermind
shortLabel Mastermind Variants
longLabel Genomenon Mastermind Variants extracted from full text publications
release alpha
visibility dense
type bigBed 9 +
urls url=$$
bigDataUrl /gbdb/$D/bbi/mastermind.bb
noScoreFilter on
exonNumbers off
mouseOver Variant: $name
Gene: $gene
Linkout: $_mouseOver
Article count 1: $mmcnt1
Article count 2: $mmcnt2
Article count 3: $mmcnt3
itemRgb on
filter.mmcnt1 0
filter.mmcnt2 0
@@ -229,47 +228,45 @@
bigDataUrl /gbdb/$D/pubs2/pubtatorDbSnp.bb
noScoreFilter on
exonNumbers off
itemRgb on
parent varsInPubs pack
urls pubmedIds="https://www.ncbi.nlm.nih.gov/pubmed/$$"
mouseOver $name found in ${numPubmedIds} PubMed articles
html varsInPubs
track varaico
shortLabel Varaico Variants
longLabel Varaico Variants extracted from full text publications, titles, and abstracts
visibility dense
type bigBed 9 +
bigDataUrl /gbdb/$D/bbi/varaico.bb
- pennantIcon Updated red ../goldenPath/newsarch.html#062526 "Updated Jun. 25, 2026"
noScoreFilter on
exonNumbers off
# itemRgb on
dataVersion release 3 (20260527)
parent varsInPubs pack
urls outlink="$$" 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: $articlesCount
Variant Effect: $variantEffect
html varaico.html
track varaicoSuppl
shortLabel Varaico Variants (suppl)
longLabel Varaico Variants extracted from Supplementary Data
visibility dense
type bigBed 9 +
bigDataUrl /gbdb/$D/bbi/varaicoSuppl.bb
- pennantIcon Updated red ../goldenPath/newsarch.html#062526 "Updated Jun. 25, 2026"
noScoreFilter on
exonNumbers off
# itemRgb on
dataVersion release 3 (20260527)
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: $articlesCount
Variant Effect: $variantEffect
html varaico.html
track caseControl
compositeTrack on
shortLabel Case Control
longLabel Case Control Consortium
group phenDis
visibility hide