b7b9978c92a2376d6d9ef4f0a4974cb8167295f8
gperez2
  Wed Sep 30 14:17:50 2026 -0700
Updating the TAD tracks from the qa-track SKILL.md pass (hg19, hg38, mm10, mm39): shortLabel fixes for cut-off and duplicate ENCODE and 3DGB subtracks, lowercase biosamples in ENCODE longLabels, " bnd" dropped from Schmitt shortLabels, 3DGB subtracks set to pack with three mm10/mm39 defaults turned on, allButtonPair removed so the Schmitt matrix shows, and McArthur item labels hidden. Merged identical description pages into human/ and mouse/, plus description page cleanups (regenerated References, removed the "How to use these tracks" section, ENCODE pages now say 112 of 117 biosamples use Arrowhead). Also updated the ENCODE metadata columns and organ example in the hg38 makedoc. refs #21599

diff --git src/hg/makeDb/trackDb/mouse/mm39/tadsEncode.ra src/hg/makeDb/trackDb/mouse/mm39/tadsEncode.ra
index a2f23a58669..6d413c757e8 100644
--- src/hg/makeDb/trackDb/mouse/mm39/tadsEncode.ra
+++ src/hg/makeDb/trackDb/mouse/mm39/tadsEncode.ra
@@ -15,131 +15,131 @@
 html tadsEncode
 
     track tadsEncode_ENCSR005UON
     parent tadsEncode on
     shortLabel CH12.LX
     longLabel ENCODE TADs in CH12.LX (ENCSR005UON, lifted from mm10)
     type bigBed 4 + 5
     bigDataUrl /gbdb/mm39/bbi/tad/tadsEncode/CH12LX.bb
     color 6,218,147
     visibility dense
     mouseOver <b>Biosample:</b> CH12.LX<br><b>Arrowhead corner score:</b> $cornerScore
 
     track tadsEncode_ENCSR097DFP
     parent tadsEncode on
     shortLabel Heart
-    longLabel ENCODE TADs in Heart (ENCSR097DFP, lifted from mm10)
+    longLabel ENCODE TADs in heart (ENCSR097DFP, lifted from mm10)
     type bigBed 4 + 5
     bigDataUrl /gbdb/mm39/bbi/tad/tadsEncode/heart.bb
     color 116,50,165
     visibility dense
     mouseOver <b>Biosample:</b> Heart<br><b>Arrowhead corner score:</b> $cornerScore
 
     track tadsEncode_ENCSR639NRL
     parent tadsEncode on
     shortLabel Left cerebral cortex
-    longLabel ENCODE TADs in Left cerebral cortex (ENCSR639NRL, lifted from mm10)
+    longLabel ENCODE TADs in left cerebral cortex (ENCSR639NRL, lifted from mm10)
     type bigBed 4 + 5
     bigDataUrl /gbdb/mm39/bbi/tad/tadsEncode/leftcerebralcortex.bb
     color 155,155,18
     visibility dense
     mouseOver <b>Biosample:</b> Left cerebral cortex<br><b>Arrowhead corner score:</b> $cornerScore
 
     track tadsEncode_ENCSR028GRK
     parent tadsEncode on
-    shortLabel Mouse embryonic stem
+    shortLabel Mouse ESC
     longLabel ENCODE TADs in Mouse embryonic stem cell (ENCSR028GRK, lifted from mm10)
     type bigBed 4 + 5
     bigDataUrl /gbdb/mm39/bbi/tad/tadsEncode/mouseembryonicstemcell.bb
     color 118,158,101
     visibility dense
     mouseOver <b>Biosample:</b> Mouse embryonic stem cell<br><b>Arrowhead corner score:</b> $cornerScore
 
     track tadsEncode_ENCSR820CZQ
     parent tadsEncode off
     shortLabel Adrenal gland
-    longLabel ENCODE TADs in Adrenal gland (ENCSR820CZQ, lifted from mm10)
+    longLabel ENCODE TADs in adrenal gland (ENCSR820CZQ, lifted from mm10)
     type bigBed 4 + 5
     bigDataUrl /gbdb/mm39/bbi/tad/tadsEncode/adrenalgland.bb
     color 90,179,68
     visibility dense
     mouseOver <b>Biosample:</b> Adrenal gland<br><b>Arrowhead corner score:</b> $cornerScore
 
     track tadsEncode_ENCSR549VZT
     parent tadsEncode off
     shortLabel CH12F3
     longLabel ENCODE TADs in CH12F3 (ENCSR549VZT, lifted from mm10)
     type bigBed 4 + 5
     bigDataUrl /gbdb/mm39/bbi/tad/tadsEncode/CH12F3.bb
     color 254,75,173
     visibility dense
     mouseOver <b>Biosample:</b> CH12F3<br><b>Arrowhead corner score:</b> $cornerScore
 
     track tadsEncode_ENCSR051JZL
     parent tadsEncode off
     shortLabel ES-E14
     longLabel ENCODE TADs in ES-E14 (ENCSR051JZL, lifted from mm10)
     type bigBed 4 + 5
     bigDataUrl /gbdb/mm39/bbi/tad/tadsEncode/ESE14.bb
     color 118,158,101
     visibility dense
     mouseOver <b>Biosample:</b> ES-E14<br><b>Arrowhead corner score:</b> $cornerScore
 
     track tadsEncode_ENCSR136LVP
     parent tadsEncode off
     shortLabel Gastrocnemius
-    longLabel ENCODE TADs in Gastrocnemius (ENCSR136LVP, lifted from mm10)
+    longLabel ENCODE TADs in gastrocnemius (ENCSR136LVP, lifted from mm10)
     type bigBed 4 + 5
     bigDataUrl /gbdb/mm39/bbi/tad/tadsEncode/gastrocnemius.bb
     color 137,135,170
     visibility dense
     mouseOver <b>Biosample:</b> Gastrocnemius<br><b>Arrowhead corner score:</b> $cornerScore
 
     track tadsEncode_ENCSR471ZWB
     parent tadsEncode off
     shortLabel Mature B cell
-    longLabel ENCODE TADs in Mature B cell (ENCSR471ZWB, lifted from mm10)
+    longLabel ENCODE TADs in mature B cell (ENCSR471ZWB, lifted from mm10)
     type bigBed 4 + 5
     bigDataUrl /gbdb/mm39/bbi/tad/tadsEncode/matureBcell.bb
     color 254,75,173
     visibility dense
     mouseOver <b>Biosample:</b> Mature B cell<br><b>Arrowhead corner score:</b> $cornerScore
 
     track tadsEncode_ENCSR357JYI
     parent tadsEncode off
-    shortLabel Mouse trophoblast stem
+    shortLabel Mouse trophoblast SC
     longLabel ENCODE TADs in Mouse trophoblast stem cell (ENCSR357JYI, lifted from mm10)
     type bigBed 4 + 5
     bigDataUrl /gbdb/mm39/bbi/tad/tadsEncode/mousetrophoblaststemcell.bb
     color 104,171,71
     visibility dense
     mouseOver <b>Biosample:</b> Mouse trophoblast stem cell<br><b>Arrowhead corner score:</b> $cornerScore
 
     track tadsEncode_ENCSR080JTU
     parent tadsEncode off
     shortLabel Patski
     longLabel ENCODE TADs in Patski (ENCSR080JTU, lifted from mm10)
     type bigBed 4 + 5
     bigDataUrl /gbdb/mm39/bbi/tad/tadsEncode/Patski.bb
     color 92,161,153
     visibility dense
     mouseOver <b>Biosample:</b> Patski<br><b>Arrowhead corner score:</b> $cornerScore
 
     track tadsEncode_ENCSR516LTA
     parent tadsEncode off
     shortLabel Regulatory T cell
-    longLabel ENCODE TADs in Regulatory T cell (ENCSR516LTA, lifted from mm10)
+    longLabel ENCODE TADs in regulatory T cell (ENCSR516LTA, lifted from mm10)
     type bigBed 4 + 5
     bigDataUrl /gbdb/mm39/bbi/tad/tadsEncode/regulatoryTcell.bb
     color 254,75,173
     visibility dense
     mouseOver <b>Biosample:</b> Regulatory T cell<br><b>Arrowhead corner score:</b> $cornerScore
 
     track tadsEncode_ENCSR858EVG
     parent tadsEncode off
     shortLabel T-helper 1 cell
     longLabel ENCODE TADs in T-helper 1 cell (ENCSR858EVG, lifted from mm10)
     type bigBed 4 + 5
     bigDataUrl /gbdb/mm39/bbi/tad/tadsEncode/Thelper1cell.bb
     color 254,75,173
     visibility dense
     mouseOver <b>Biosample:</b> T-helper 1 cell<br><b>Arrowhead corner score:</b> $cornerScore
@@ -154,23 +154,23 @@
     visibility dense
     mouseOver <b>Biosample:</b> T-helper 17 cell<br><b>Arrowhead corner score:</b> $cornerScore
 
     track tadsEncode_ENCSR407MXC
     parent tadsEncode off
     shortLabel T-helper 2 cell
     longLabel ENCODE TADs in T-helper 2 cell (ENCSR407MXC, lifted from mm10)
     type bigBed 4 + 5
     bigDataUrl /gbdb/mm39/bbi/tad/tadsEncode/Thelper2cell.bb
     color 254,75,173
     visibility dense
     mouseOver <b>Biosample:</b> T-helper 2 cell<br><b>Arrowhead corner score:</b> $cornerScore
 
     track tadsEncode_ENCSR799QDS
     parent tadsEncode off
-    shortLabel v-Abl transformed
+    shortLabel v-Abl pro-B cell
     longLabel ENCODE TADs in v-Abl transformed pro-B cells (ENCSR799QDS, lifted from mm10)
     type bigBed 4 + 5
     bigDataUrl /gbdb/mm39/bbi/tad/tadsEncode/vAbltransformedproBcells.bb
     color 254,75,173
     visibility dense
     mouseOver <b>Biosample:</b> v-Abl transformed pro-B cells<br><b>Arrowhead corner score:</b> $cornerScore