c7a78bd7342f93f63acaf6759ca7077b9caaa64c
gperez2
  Wed Jul 22 22:05:43 2026 -0700
Announcing the ENCODE4 cCREs and ENCODE4 Regulation tracks. Adding pennantIcons on mm10 cCREs/cCREregistry/coreCcres and hg38/mm10 ENCODE4 Regulation supertracks, making ENCODE4 Regulation show by default and adding a deprecation pennantIcon on ENCODE3 Regulation. Renaming ENCODE Regulation to ENCODE3 Regulation on hg38 and removing the separate wgEncodeReg.alpha.ra file. refs #37845 refs #34923 refs #37131

diff --git src/hg/makeDb/trackDb/mouse/mm10/encode4Reg.ra src/hg/makeDb/trackDb/mouse/mm10/encode4Reg.ra
index 113ab9d5a25..cd28713a5d2 100644
--- src/hg/makeDb/trackDb/mouse/mm10/encode4Reg.ra
+++ src/hg/makeDb/trackDb/mouse/mm10/encode4Reg.ra
@@ -1,1230 +1,1230 @@
 # ENCODE4 Integrated Regulation Track
 
 track encode4Reg
-superTrack on hide
+superTrack on show
 shortLabel ENCODE4 Regulation
 longLabel Integrated Regulation from ENCODE 4
 group regulation
 priority 0.5
-pennantIcon New red
+pennantIcon New red ../goldenPath/newsarch.html#072226 "Released Jul. 22, 2026"
 html encode4Reg.html
 
     track encode4RegMarkH3k27ac
     container multiWig
     noInherit on
     type bigWig
     superTrack encode4Reg full
     shortLabel H3K27ac (Layered)
     longLabel H3K27ac signal marking active enhancers and promoters, averaged by organ/tissue
     visibility full
     viewLimits 0:100
     autoScale on
     maxHeightPixels 100:50:11
     aggregate transparentOverlay
     showSubtrackColorOnUi on
     priority 1.4
     dragAndDrop subtracks
     allButtonPair on
     html encode4RegMarkH3k27ac.html
 
         track encode4RegMarkH3k27acAdipose
         type bigWig
         shortLabel Adipose
         longLabel H3K27ac level of 1 adipose experiment (tissues and primary cells only)
         color 255,119,39
         parent encode4RegMarkH3k27ac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/adiposeH3K27ac.bw
         priority 1
 
         track encode4RegMarkH3k27acBoneMarrow
         type bigWig
         shortLabel Bone marrow
         longLabel Avg. H3K27ac level of 2 bone marrow experiments (tissues and primary cells only)
         color 184,120,120
         parent encode4RegMarkH3k27ac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/boneMarrowH3K27ac.bw
         priority 2
 
         track encode4RegMarkH3k27acBrain
         type bigWig
         shortLabel Brain
         longLabel Avg. H3K27ac level of 27 brain experiments (tissues and primary cells only)
         color 155,155,18
         parent encode4RegMarkH3k27ac
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/brainH3K27ac.bw
         priority 3
 
         track encode4RegMarkH3k27acConnectiveTissue
         type bigWig
         shortLabel Connective tissue
         longLabel H3K27ac level of 1 connective tissue experiment (tissues and primary cells only)
         color 138,135,169
         parent encode4RegMarkH3k27ac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/connectiveTissueH3K27ac.bw
         priority 4
 
         track encode4RegMarkH3k27acEmbryo
         type bigWig
         shortLabel Embryo
         longLabel Avg. H3K27ac level of 6 embryo experiments (tissues and primary cells only)
         color 118,158,101
         parent encode4RegMarkH3k27ac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/embryoH3K27ac.bw
         priority 5
 
         track encode4RegMarkH3k27acEpithelium
         type bigWig
         shortLabel Epithelium
         longLabel Avg. H3K27ac level of 5 epithelium experiments (tissues and primary cells only)
         color 221,126,107
         parent encode4RegMarkH3k27ac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/epitheliumH3K27ac.bw
         priority 6
 
         track encode4RegMarkH3k27acHeart
         type bigWig
         shortLabel Heart
         longLabel Avg. H3K27ac level of 10 heart experiments (tissues and primary cells only)
         color 116,50,165
         parent encode4RegMarkH3k27ac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/heartH3K27ac.bw
         priority 7
 
         track encode4RegMarkH3k27acIntestine
         type bigWig
         shortLabel Intestine
         longLabel Avg. H3K27ac level of 4 intestine experiments (tissues and primary cells only)
         color 121,92,166
         parent encode4RegMarkH3k27ac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/intestineH3K27ac.bw
         priority 8
 
         track encode4RegMarkH3k27acKidney
         type bigWig
         shortLabel Kidney
         longLabel Avg. H3K27ac level of 5 kidney experiments (tissues and primary cells only)
         color 92,161,153
         parent encode4RegMarkH3k27ac
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/kidneyH3K27ac.bw
         priority 9
 
         track encode4RegMarkH3k27acLimb
         type bigWig
         shortLabel Limb
         longLabel Avg. H3K27ac level of 6 limb experiments (tissues and primary cells only)
         color 95,88,237
         parent encode4RegMarkH3k27ac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/limbH3K27ac.bw
         priority 10
 
         track encode4RegMarkH3k27acLiver
         type bigWig
         shortLabel Liver
         longLabel Avg. H3K27ac level of 9 liver experiments (tissues and primary cells only)
         color 137,152,82
         parent encode4RegMarkH3k27ac
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/liverH3K27ac.bw
         priority 11
 
         track encode4RegMarkH3k27acLung
         type bigWig
         shortLabel Lung
         longLabel Avg. H3K27ac level of 4 lung experiments (tissues and primary cells only)
         color 130,163,45
         parent encode4RegMarkH3k27ac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/lungH3K27ac.bw
         priority 12
 
         track encode4RegMarkH3k27acPlacenta
         type bigWig
         shortLabel Placenta
         longLabel H3K27ac level of 1 placenta experiment (tissues and primary cells only)
         color 104,171,71
         parent encode4RegMarkH3k27ac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/placentaH3K27ac.bw
         priority 13
 
         track encode4RegMarkH3k27acSmallIntestine
         type bigWig
         shortLabel Small intestine
         longLabel H3K27ac level of 1 small intestine experiment (tissues and primary cells only)
         color 98,98,41
         parent encode4RegMarkH3k27ac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/smallIntestineH3K27ac.bw
         priority 14
 
         track encode4RegMarkH3k27acSpleen
         type bigWig
         shortLabel Spleen
         longLabel H3K27ac level of 1 spleen experiment (tissues and primary cells only)
         color 136,157,97
         parent encode4RegMarkH3k27ac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/spleenH3K27ac.bw
         priority 15
 
         track encode4RegMarkH3k27acStomach
         type bigWig
         shortLabel Stomach
         longLabel Avg. H3K27ac level of 4 stomach experiments (tissues and primary cells only)
         color 145,144,99
         parent encode4RegMarkH3k27ac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/stomachH3K27ac.bw
         priority 16
 
         track encode4RegMarkH3k27acTestis
         type bigWig
         shortLabel Testis
         longLabel H3K27ac level of 1 testis experiment (tissues and primary cells only)
         color 139,140,140
         parent encode4RegMarkH3k27ac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/testisH3K27ac.bw
         priority 17
 
         track encode4RegMarkH3k27acThymus
         type bigWig
         shortLabel Thymus
         longLabel H3K27ac level of 1 thymus experiment (tissues and primary cells only)
         color 142,124,195
         parent encode4RegMarkH3k27ac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/thymusH3K27ac.bw
         priority 18
 
         track encode4RegMarkH3k27acAllBlood
         type bigWig
         shortLabel Blood (all biosamples)
         longLabel H3K27ac level of 1 blood experiment (all biosamples)
         color 254,75,173
         parent encode4RegMarkH3k27ac
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/bloodH3K27acAll.bw
         priority 19
 
         track encode4RegMarkH3k27acAllEmbryo
         type bigWig
         shortLabel Embryo (all biosamples)
         longLabel Avg. H3K27ac level of 8 embryo experiments (all biosamples)
         color 118,158,101
         parent encode4RegMarkH3k27ac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/embryoH3K27acAll.bw
         priority 20
 
         track encode4RegMarkH3k27acAllSpleen
         type bigWig
         shortLabel Spleen (all biosamples)
         longLabel Avg. H3K27ac level of 2 spleen experiments (all biosamples)
         color 136,157,97
         parent encode4RegMarkH3k27ac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/spleenH3K27acAll.bw
         priority 21
 
     track encode4RegDnase
     container multiWig
     noInherit on
     type bigWig
     superTrack encode4Reg hide
     shortLabel DNase (Layered)
     longLabel Chromatin accessibility from DNase-seq signal, averaged by organ/tissue
     visibility hide
     viewLimits 0:50
     autoScale on
     maxHeightPixels 100:50:11
     aggregate transparentOverlay
     showSubtrackColorOnUi on
     priority 1.1
     dragAndDrop subtracks
     allButtonPair on
     html encode4RegDnase.html
 
         track encode4RegDnaseAdipose
         type bigWig
         shortLabel Adipose
         longLabel Avg. DNase level of 2 adipose experiments (tissues and primary cells only)
         color 255,119,39
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/adiposeDNase.bw
         priority 1
 
         track encode4RegDnaseAdrenalGland
         type bigWig
         shortLabel Adrenal gland
         longLabel Avg. DNase level of 14 adrenal gland experiments (tissues and primary cells only)
         color 90,179,68
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/adrenalGlandDNase.bw
         priority 2
 
         track encode4RegDnaseBlood
         type bigWig
         shortLabel Blood
         longLabel Avg. DNase level of 6 blood experiments (tissues and primary cells only)
         color 254,75,173
         parent encode4RegDnase
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/bloodDNase.bw
         priority 3
 
         track encode4RegDnaseBloodMarrow
         type bigWig
         shortLabel Blood marrow
         longLabel Avg. DNase level of 5 blood marrow experiments (tissues and primary cells only)
         color 184,120,120
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/bloodMarrowDNase.bw
         priority 4
 
         track encode4RegDnaseBrain
         type bigWig
         shortLabel Brain
         longLabel Avg. DNase level of 78 brain experiments (tissues and primary cells only)
         color 155,155,18
         parent encode4RegDnase
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/brainDNase.bw
         priority 5
 
         track encode4RegDnaseConnectiveTissue
         type bigWig
         shortLabel Connective tissue
         longLabel Avg. DNase level of 5 connective tissue experiments (tissues and primary cells only)
         color 138,135,169
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/connectiveTissueDNase.bw
         priority 6
 
         track encode4RegDnaseEmbryo
         type bigWig
         shortLabel Embryo
         longLabel Avg. DNase level of 11 embryo experiments (tissues and primary cells only)
         color 118,158,101
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/embryoDNase.bw
         priority 7
 
         track encode4RegDnaseEpithelium
         type bigWig
         shortLabel Epithelium
         longLabel Avg. DNase level of 3 epithelium experiments (tissues and primary cells only)
         color 221,126,107
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/epitheliumDNase.bw
         priority 8
 
         track encode4RegDnaseEye
         type bigWig
         shortLabel Eye
         longLabel Avg. DNase level of 5 eye experiments (tissues and primary cells only)
         color 163,127,144
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/eyeDNase.bw
         priority 9
 
         track encode4RegDnaseHeart
         type bigWig
         shortLabel Heart
         longLabel Avg. DNase level of 17 heart experiments (tissues and primary cells only)
         color 116,50,165
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/heartDNase.bw
         priority 10
 
         track encode4RegDnaseIntestine
         type bigWig
         shortLabel Intestine
         longLabel DNase level of 1 intestine experiment (tissues and primary cells only)
         color 121,92,166
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/intestineDNase.bw
         priority 11
 
         track encode4RegDnaseKidney
         type bigWig
         shortLabel Kidney
         longLabel Avg. DNase level of 17 kidney experiments (tissues and primary cells only)
         color 92,161,153
         parent encode4RegDnase
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/kidneyDNase.bw
         priority 12
 
         track encode4RegDnaseLargeIntestine
         type bigWig
         shortLabel Large intestine
         longLabel DNase level of 1 large intestine experiment (tissues and primary cells only)
         color 86,86,36
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/largeIntestineDNase.bw
         priority 13
 
         track encode4RegDnaseLimb
         type bigWig
         shortLabel Limb
         longLabel Avg. DNase level of 3 limb experiments (tissues and primary cells only)
         color 95,88,237
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/limbDNase.bw
         priority 14
 
         track encode4RegDnaseLiver
         type bigWig
         shortLabel Liver
         longLabel Avg. DNase level of 13 liver experiments (tissues and primary cells only)
         color 137,152,82
         parent encode4RegDnase
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/liverDNase.bw
         priority 15
 
         track encode4RegDnaseLung
         type bigWig
         shortLabel Lung
         longLabel Avg. DNase level of 16 lung experiments (tissues and primary cells only)
         color 130,163,45
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/lungDNase.bw
         priority 16
 
         track encode4RegDnaseMuscle
         type bigWig
         shortLabel Muscle
         longLabel Avg. DNase level of 16 muscle experiments (tissues and primary cells only)
         color 137,135,170
         parent encode4RegDnase
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/muscleDNase.bw
         priority 17
 
         track encode4RegDnaseOvary
         type bigWig
         shortLabel Ovary
         longLabel Avg. DNase level of 4 ovary experiments (tissues and primary cells only)
         color 161,126,151
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/ovaryDNase.bw
         priority 18
 
         track encode4RegDnaseSpleen
         type bigWig
         shortLabel Spleen
         longLabel Avg. DNase level of 12 spleen experiments (tissues and primary cells only)
         color 136,157,97
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/spleenDNase.bw
         priority 19
 
         track encode4RegDnaseStomach
         type bigWig
         shortLabel Stomach
         longLabel DNase level of 1 stomach experiment (tissues and primary cells only)
         color 145,144,99
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/stomachDNase.bw
         priority 20
 
         track encode4RegDnaseTestis
         type bigWig
         shortLabel Testis
         longLabel Avg. DNase level of 2 testis experiments (tissues and primary cells only)
         color 139,140,140
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/testisDNase.bw
         priority 21
 
         track encode4RegDnaseThymus
         type bigWig
         shortLabel Thymus
         longLabel Avg. DNase level of 15 thymus experiments (tissues and primary cells only)
         color 142,124,195
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/thymusDNase.bw
         priority 22
 
         track encode4RegDnaseUrinaryBladder
         type bigWig
         shortLabel Urinary bladder
         longLabel Avg. DNase level of 10 urinary bladder experiments (tissues and primary cells only)
         color 194,33,39
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/urinaryBladderDNase.bw
         priority 23
 
         track encode4RegDnaseAllBlood
         type bigWig
         shortLabel Blood (all biosamples)
         longLabel Avg. DNase level of 8 blood experiments (all biosamples)
         color 254,75,173
         parent encode4RegDnase
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/bloodDNaseAll.bw
         priority 24
 
         track encode4RegDnaseAllBoneMarrow
         type bigWig
         shortLabel Bone marrow (all biosamples)
         longLabel Avg. DNase level of 3 bone marrow experiments (all biosamples)
         color 184,120,120
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/boneMarrowDNaseAll.bw
         priority 25
 
         track encode4RegDnaseAllBreast
         type bigWig
         shortLabel Breast (all biosamples)
         longLabel DNase level of 1 breast experiment (all biosamples)
         color 65,171,173
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/breastDNaseAll.bw
         priority 26
 
         track encode4RegDnaseAllEmbryo
         type bigWig
         shortLabel Embryo (all biosamples)
         longLabel Avg. DNase level of 22 embryo experiments (all biosamples)
         color 118,158,101
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/embryoDNaseAll.bw
         priority 27
 
         track encode4RegDnaseAllSpinalCord
         type bigWig
         shortLabel Spinal cord (all biosamples)
         longLabel Avg. DNase level of 2 spinal cord experiments (all biosamples)
         color 130,141,158
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/spinalCordDNaseAll.bw
         priority 28
 
         track encode4RegDnaseAllSpleen
         type bigWig
         shortLabel Spleen (all biosamples)
         longLabel Avg. DNase level of 15 spleen experiments (all biosamples)
         color 136,157,97
         parent encode4RegDnase off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/spleenDNaseAll.bw
         priority 29
 
     track encode4RegAtac
     container multiWig
     noInherit on
     type bigWig
     superTrack encode4Reg hide
     shortLabel ATAC (Layered)
     longLabel Chromatin accessibility from ATAC-seq signal, averaged by organ/tissue
     visibility hide
     viewLimits 0:50
     autoScale on
     maxHeightPixels 100:50:11
     aggregate transparentOverlay
     showSubtrackColorOnUi on
     priority 1.2
     dragAndDrop subtracks
     allButtonPair on
     html encode4RegAtac.html
 
         track encode4RegAtacBlood
         type bigWig
         shortLabel Blood
         longLabel Avg. ATAC level of 4 blood experiments (tissues and primary cells only)
         color 254,75,173
         parent encode4RegAtac
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/bloodATAC.bw
         priority 1
 
         track encode4RegAtacBoneMarrow
         type bigWig
         shortLabel Bone marrow
         longLabel Avg. ATAC level of 7 bone marrow experiments (tissues and primary cells only)
         color 184,120,120
         parent encode4RegAtac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/boneMarrowATAC.bw
         priority 2
 
         track encode4RegAtacBrain
         type bigWig
         shortLabel Brain
         longLabel Avg. ATAC level of 23 brain experiments (tissues and primary cells only)
         color 155,155,18
         parent encode4RegAtac
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/brainATAC.bw
         priority 3
 
         track encode4RegAtacEmbryo
         type bigWig
         shortLabel Embryo
         longLabel Avg. ATAC level of 5 embryo experiments (tissues and primary cells only)
         color 118,158,101
         parent encode4RegAtac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/embryoATAC.bw
         priority 4
 
         track encode4RegAtacEpithelium
         type bigWig
         shortLabel Epithelium
         longLabel Avg. ATAC level of 5 epithelium experiments (tissues and primary cells only)
         color 221,126,107
         parent encode4RegAtac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/epitheliumATAC.bw
         priority 5
 
         track encode4RegAtacHeart
         type bigWig
         shortLabel Heart
         longLabel Avg. ATAC level of 7 heart experiments (tissues and primary cells only)
         color 116,50,165
         parent encode4RegAtac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/heartATAC.bw
         priority 6
 
         track encode4RegAtacIntestine
         type bigWig
         shortLabel Intestine
         longLabel Avg. ATAC level of 4 intestine experiments (tissues and primary cells only)
         color 121,92,166
         parent encode4RegAtac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/intestineATAC.bw
         priority 7
 
         track encode4RegAtacKidney
         type bigWig
         shortLabel Kidney
         longLabel Avg. ATAC level of 4 kidney experiments (tissues and primary cells only)
         color 92,161,153
         parent encode4RegAtac
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/kidneyATAC.bw
         priority 8
 
         track encode4RegAtacLimb
         type bigWig
         shortLabel Limb
         longLabel Avg. ATAC level of 5 limb experiments (tissues and primary cells only)
         color 95,88,237
         parent encode4RegAtac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/limbATAC.bw
         priority 9
 
         track encode4RegAtacLiver
         type bigWig
         shortLabel Liver
         longLabel Avg. ATAC level of 7 liver experiments (tissues and primary cells only)
         color 137,152,82
         parent encode4RegAtac
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/liverATAC.bw
         priority 10
 
         track encode4RegAtacLung
         type bigWig
         shortLabel Lung
         longLabel Avg. ATAC level of 4 lung experiments (tissues and primary cells only)
         color 130,163,45
         parent encode4RegAtac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/lungATAC.bw
         priority 11
 
         track encode4RegAtacStomach
         type bigWig
         shortLabel Stomach
         longLabel Avg. ATAC level of 4 stomach experiments (tissues and primary cells only)
         color 145,144,99
         parent encode4RegAtac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/stomachATAC.bw
         priority 12
 
         track encode4RegAtacAllEmbryo
         type bigWig
         shortLabel Embryo (all biosamples)
         longLabel Avg. ATAC level of 7 embryo experiments (all biosamples)
         color 118,158,101
         parent encode4RegAtac off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/embryoATACAll.bw
         priority 13
 
     track encode4RegMarkH3k4me3
     container multiWig
     noInherit on
     type bigWig
     superTrack encode4Reg hide
     shortLabel H3K4me3 (Layered)
     longLabel H3K4me3 signal marking active and poised promoters, averaged by organ/tissue
     visibility hide
     viewLimits 0:100
     autoScale on
     maxHeightPixels 100:50:11
     aggregate transparentOverlay
     showSubtrackColorOnUi on
     priority 1.3
     dragAndDrop subtracks
     allButtonPair on
     html encode4RegMarkH3k4me3.html
 
         track encode4RegMarkH3k4me3Adipose
         type bigWig
         shortLabel Adipose
         longLabel H3K4me3 level of 1 adipose experiment (tissues and primary cells only)
         color 255,119,39
         parent encode4RegMarkH3k4me3 off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/adiposeH3K4me3.bw
         priority 1
 
         track encode4RegMarkH3k4me3BoneMarrow
         type bigWig
         shortLabel Bone marrow
         longLabel Avg. H3K4me3 level of 4 bone marrow experiments (tissues and primary cells only)
         color 184,120,120
         parent encode4RegMarkH3k4me3 off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/boneMarrowH3K4me3.bw
         priority 2
 
         track encode4RegMarkH3k4me3Brain
         type bigWig
         shortLabel Brain
         longLabel Avg. H3K4me3 level of 27 brain experiments (tissues and primary cells only)
         color 155,155,18
         parent encode4RegMarkH3k4me3
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/brainH3K4me3.bw
         priority 3
 
         track encode4RegMarkH3k4me3ConnectiveTissue
         type bigWig
         shortLabel Connective tissue
         longLabel H3K4me3 level of 1 connective tissue experiment (tissues and primary cells only)
         color 138,135,169
         parent encode4RegMarkH3k4me3 off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/connectiveTissueH3K4me3.bw
         priority 4
 
         track encode4RegMarkH3k4me3Embryo
         type bigWig
         shortLabel Embryo
         longLabel Avg. H3K4me3 level of 6 embryo experiments (tissues and primary cells only)
         color 118,158,101
         parent encode4RegMarkH3k4me3 off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/embryoH3K4me3.bw
         priority 5
 
         track encode4RegMarkH3k4me3Epithelium
         type bigWig
         shortLabel Epithelium
         longLabel Avg. H3K4me3 level of 5 epithelium experiments (tissues and primary cells only)
         color 221,126,107
         parent encode4RegMarkH3k4me3 off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/epitheliumH3K4me3.bw
         priority 6
 
         track encode4RegMarkH3k4me3Heart
         type bigWig
         shortLabel Heart
         longLabel Avg. H3K4me3 level of 10 heart experiments (tissues and primary cells only)
         color 116,50,165
         parent encode4RegMarkH3k4me3 off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/heartH3K4me3.bw
         priority 7
 
         track encode4RegMarkH3k4me3Intestine
         type bigWig
         shortLabel Intestine
         longLabel Avg. H3K4me3 level of 4 intestine experiments (tissues and primary cells only)
         color 121,92,166
         parent encode4RegMarkH3k4me3 off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/intestineH3K4me3.bw
         priority 8
 
         track encode4RegMarkH3k4me3Kidney
         type bigWig
         shortLabel Kidney
         longLabel Avg. H3K4me3 level of 5 kidney experiments (tissues and primary cells only)
         color 92,161,153
         parent encode4RegMarkH3k4me3
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/kidneyH3K4me3.bw
         priority 9
 
         track encode4RegMarkH3k4me3Limb
         type bigWig
         shortLabel Limb
         longLabel Avg. H3K4me3 level of 6 limb experiments (tissues and primary cells only)
         color 95,88,237
         parent encode4RegMarkH3k4me3 off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/limbH3K4me3.bw
         priority 10
 
         track encode4RegMarkH3k4me3Liver
         type bigWig
         shortLabel Liver
         longLabel Avg. H3K4me3 level of 9 liver experiments (tissues and primary cells only)
         color 137,152,82
         parent encode4RegMarkH3k4me3
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/liverH3K4me3.bw
         priority 11
 
         track encode4RegMarkH3k4me3Lung
         type bigWig
         shortLabel Lung
         longLabel Avg. H3K4me3 level of 5 lung experiments (tissues and primary cells only)
         color 130,163,45
         parent encode4RegMarkH3k4me3 off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/lungH3K4me3.bw
         priority 12
 
         track encode4RegMarkH3k4me3Placenta
         type bigWig
         shortLabel Placenta
         longLabel H3K4me3 level of 1 placenta experiment (tissues and primary cells only)
         color 104,171,71
         parent encode4RegMarkH3k4me3 off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/placentaH3K4me3.bw
         priority 13
 
         track encode4RegMarkH3k4me3SmallIntestine
         type bigWig
         shortLabel Small intestine
         longLabel H3K4me3 level of 1 small intestine experiment (tissues and primary cells only)
         color 98,98,41
         parent encode4RegMarkH3k4me3 off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/smallIntestineH3K4me3.bw
         priority 14
 
         track encode4RegMarkH3k4me3Spleen
         type bigWig
         shortLabel Spleen
         longLabel H3K4me3 level of 1 spleen experiment (tissues and primary cells only)
         color 136,157,97
         parent encode4RegMarkH3k4me3 off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/spleenH3K4me3.bw
         priority 15
 
         track encode4RegMarkH3k4me3Stomach
         type bigWig
         shortLabel Stomach
         longLabel Avg. H3K4me3 level of 4 stomach experiments (tissues and primary cells only)
         color 145,144,99
         parent encode4RegMarkH3k4me3 off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/stomachH3K4me3.bw
         priority 16
 
         track encode4RegMarkH3k4me3Testis
         type bigWig
         shortLabel Testis
         longLabel H3K4me3 level of 1 testis experiment (tissues and primary cells only)
         color 139,140,140
         parent encode4RegMarkH3k4me3 off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/testisH3K4me3.bw
         priority 17
 
         track encode4RegMarkH3k4me3Thymus
         type bigWig
         shortLabel Thymus
         longLabel H3K4me3 level of 1 thymus experiment (tissues and primary cells only)
         color 142,124,195
         parent encode4RegMarkH3k4me3 off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/thymusH3K4me3.bw
         priority 18
 
         track encode4RegMarkH3k4me3AllBlood
         type bigWig
         shortLabel Blood (all biosamples)
         longLabel H3K4me3 level of 1 blood experiment (all biosamples)
         color 254,75,173
         parent encode4RegMarkH3k4me3
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/bloodH3K4me3All.bw
         priority 19
 
         track encode4RegMarkH3k4me3AllEmbryo
         type bigWig
         shortLabel Embryo (all biosamples)
         longLabel Avg. H3K4me3 level of 11 embryo experiments (all biosamples)
         color 118,158,101
         parent encode4RegMarkH3k4me3 off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/embryoH3K4me3All.bw
         priority 20
 
         track encode4RegMarkH3k4me3AllMuscle
         type bigWig
         shortLabel Muscle (all biosamples)
         longLabel Avg. H3K4me3 level of 2 muscle experiments (all biosamples)
         color 137,135,170
         parent encode4RegMarkH3k4me3
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/muscleH3K4me3All.bw
         priority 21
 
         track encode4RegMarkH3k4me3AllSpleen
         type bigWig
         shortLabel Spleen (all biosamples)
         longLabel Avg. H3K4me3 level of 3 spleen experiments (all biosamples)
         color 136,157,97
         parent encode4RegMarkH3k4me3 off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/spleenH3K4me3All.bw
         priority 22
 
     track encode4RegMarkCtcf
     container multiWig
     noInherit on
     type bigWig
     superTrack encode4Reg hide
     shortLabel CTCF (Layered)
     longLabel CTCF binding signal from ChIP-seq, averaged by organ/tissue
     visibility hide
     viewLimits 0:100
     autoScale on
     maxHeightPixels 100:50:11
     aggregate transparentOverlay
     showSubtrackColorOnUi on
     priority 1.5
     dragAndDrop subtracks
     allButtonPair on
     html encode4RegMarkCtcf.html
 
         track encode4RegMarkCtcfBoneMarrow
         type bigWig
         shortLabel Bone marrow
         longLabel Avg. CTCF level of 2 bone marrow experiments (tissues and primary cells only)
         color 184,120,120
         parent encode4RegMarkCtcf off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/boneMarrowCTCF.bw
         priority 1
 
         track encode4RegMarkCtcfBrain
         type bigWig
         shortLabel Brain
         longLabel Avg. CTCF level of 7 brain experiments (tissues and primary cells only)
         color 155,155,18
         parent encode4RegMarkCtcf
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/brainCTCF.bw
         priority 2
 
         track encode4RegMarkCtcfConnectiveTissue
         type bigWig
         shortLabel Connective tissue
         longLabel CTCF level of 1 connective tissue experiment (tissues and primary cells only)
         color 138,135,169
         parent encode4RegMarkCtcf off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/connectiveTissueCTCF.bw
         priority 3
 
         track encode4RegMarkCtcfHeart
         type bigWig
         shortLabel Heart
         longLabel Avg. CTCF level of 2 heart experiments (tissues and primary cells only)
         color 116,50,165
         parent encode4RegMarkCtcf off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/heartCTCF.bw
         priority 4
 
         track encode4RegMarkCtcfIntestine
         type bigWig
         shortLabel Intestine
         longLabel CTCF level of 1 intestine experiment (tissues and primary cells only)
         color 121,92,166
         parent encode4RegMarkCtcf off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/intestineCTCF.bw
         priority 5
 
         track encode4RegMarkCtcfKidney
         type bigWig
         shortLabel Kidney
         longLabel Avg. CTCF level of 2 kidney experiments (tissues and primary cells only)
         color 92,161,153
         parent encode4RegMarkCtcf
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/kidneyCTCF.bw
         priority 6
 
         track encode4RegMarkCtcfLiver
         type bigWig
         shortLabel Liver
         longLabel Avg. CTCF level of 3 liver experiments (tissues and primary cells only)
         color 137,152,82
         parent encode4RegMarkCtcf
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/liverCTCF.bw
         priority 7
 
         track encode4RegMarkCtcfLung
         type bigWig
         shortLabel Lung
         longLabel Avg. CTCF level of 3 lung experiments (tissues and primary cells only)
         color 130,163,45
         parent encode4RegMarkCtcf off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/lungCTCF.bw
         priority 8
 
         track encode4RegMarkCtcfSmallIntestine
         type bigWig
         shortLabel Small intestine
         longLabel CTCF level of 1 small intestine experiment (tissues and primary cells only)
         color 98,98,41
         parent encode4RegMarkCtcf off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/smallIntestineCTCF.bw
         priority 9
 
         track encode4RegMarkCtcfSpleen
         type bigWig
         shortLabel Spleen
         longLabel CTCF level of 1 spleen experiment (tissues and primary cells only)
         color 136,157,97
         parent encode4RegMarkCtcf off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/spleenCTCF.bw
         priority 10
 
         track encode4RegMarkCtcfStomach
         type bigWig
         shortLabel Stomach
         longLabel CTCF level of 1 stomach experiment (tissues and primary cells only)
         color 145,144,99
         parent encode4RegMarkCtcf off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/stomachCTCF.bw
         priority 11
 
         track encode4RegMarkCtcfTestis
         type bigWig
         shortLabel Testis
         longLabel CTCF level of 1 testis experiment (tissues and primary cells only)
         color 139,140,140
         parent encode4RegMarkCtcf off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/testisCTCF.bw
         priority 12
 
         track encode4RegMarkCtcfThymus
         type bigWig
         shortLabel Thymus
         longLabel CTCF level of 1 thymus experiment (tissues and primary cells only)
         color 142,124,195
         parent encode4RegMarkCtcf off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/thymusCTCF.bw
         priority 13
 
         track encode4RegMarkCtcfAllBlood
         type bigWig
         shortLabel Blood (all biosamples)
         longLabel CTCF level of 1 blood experiment (all biosamples)
         color 254,75,173
         parent encode4RegMarkCtcf
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/bloodCTCFAll.bw
         priority 14
 
         track encode4RegMarkCtcfAllEmbryo
         type bigWig
         shortLabel Embryo (all biosamples)
         longLabel Avg. CTCF level of 4 embryo experiments (all biosamples)
         color 118,158,101
         parent encode4RegMarkCtcf off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/embryoCTCFAll.bw
         priority 15
 
         track encode4RegMarkCtcfAllMuscle
         type bigWig
         shortLabel Muscle (all biosamples)
         longLabel CTCF level of 1 muscle experiment (all biosamples)
         color 137,135,170
         parent encode4RegMarkCtcf
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/muscleCTCFAll.bw
         priority 16
 
         track encode4RegMarkCtcfAllSpleen
         type bigWig
         shortLabel Spleen (all biosamples)
         longLabel Avg. CTCF level of 3 spleen experiments (all biosamples)
         color 136,157,97
         parent encode4RegMarkCtcf off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/spleenCTCFAll.bw
         priority 17
 
     track encode4RegTxn
     container multiWig
     noInherit on
     type bigWig
     superTrack encode4Reg hide
     shortLabel Transcription (Layered)
     longLabel Strand-specific transcription signal measured by total RNA-seq, averaged by organ/tissue
     visibility hide
     autoScale on
     maxHeightPixels 100:32:11
     aggregate transparentOverlay
     showSubtrackColorOnUi on
     priority 1.6
     dragAndDrop subtracks
     allButtonPair on
     html encode4RegTxn.html
 
         track encode4RegTxnAdrenalGlandPlus
         type bigWig
         shortLabel adrenal gland +
         longLabel Avg. + strand total RNA-seq level of 35 adrenal gland experiments (tissues and primary cells only)
         color 90,179,68
         parent encode4RegTxn off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/adrenalGlandPlus.bw
         priority 1
 
         track encode4RegTxnAdrenalGlandMinus
         type bigWig
         shortLabel adrenal gland -
         longLabel Avg. - strand total RNA-seq level of 35 adrenal gland experiments (tissues and primary cells only)
         color 90,179,68
         parent encode4RegTxn off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/adrenalGlandMinus.bw
         priority 2
         negateValues on
 
         track encode4RegTxnBloodPlus
         type bigWig
         shortLabel blood +
         longLabel Avg. + strand total RNA-seq level of 53 blood experiments (tissues and primary cells only)
         color 254,75,173
         parent encode4RegTxn
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/bloodPlus.bw
         priority 3
 
         track encode4RegTxnBloodMinus
         type bigWig
         shortLabel blood -
         longLabel Avg. - strand total RNA-seq level of 53 blood experiments (tissues and primary cells only)
         color 254,75,173
         parent encode4RegTxn
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/bloodMinus.bw
         priority 4
         negateValues on
 
         track encode4RegTxnBoneMarrowPlus
         type bigWig
         shortLabel bone marrow +
         longLabel Avg. + strand total RNA-seq level of 242 bone marrow experiments (tissues and primary cells only)
         color 184,120,120
         parent encode4RegTxn off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/boneMarrowPlus.bw
         priority 5
 
         track encode4RegTxnBoneMarrowMinus
         type bigWig
         shortLabel bone marrow -
         longLabel Avg. - strand total RNA-seq level of 242 bone marrow experiments (tissues and primary cells only)
         color 184,120,120
         parent encode4RegTxn off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/boneMarrowMinus.bw
         priority 6
         negateValues on
 
         track encode4RegTxnBrainPlus
         type bigWig
         shortLabel brain +
         longLabel Avg. + strand total RNA-seq level of 80 brain experiments (tissues and primary cells only)
         color 155,155,18
         parent encode4RegTxn
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/brainPlus.bw
         priority 7
 
         track encode4RegTxnBrainMinus
         type bigWig
         shortLabel brain -
         longLabel Avg. - strand total RNA-seq level of 80 brain experiments (tissues and primary cells only)
         color 155,155,18
         parent encode4RegTxn
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/brainMinus.bw
         priority 8
         negateValues on
 
         track encode4RegTxnHeartPlus
         type bigWig
         shortLabel heart +
         longLabel Avg. + strand total RNA-seq level of 40 heart experiments (tissues and primary cells only)
         color 116,50,165
         parent encode4RegTxn off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/heartPlus.bw
         priority 9
 
         track encode4RegTxnHeartMinus
         type bigWig
         shortLabel heart -
         longLabel Avg. - strand total RNA-seq level of 40 heart experiments (tissues and primary cells only)
         color 116,50,165
         parent encode4RegTxn off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/heartMinus.bw
         priority 10
         negateValues on
 
         track encode4RegTxnLiverPlus
         type bigWig
         shortLabel liver +
         longLabel Avg. + strand total RNA-seq level of 4 liver experiments (tissues and primary cells only)
         color 137,152,82
         parent encode4RegTxn
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/liverPlus.bw
         priority 11
 
         track encode4RegTxnLiverMinus
         type bigWig
         shortLabel liver -
         longLabel Avg. - strand total RNA-seq level of 4 liver experiments (tissues and primary cells only)
         color 137,152,82
         parent encode4RegTxn
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/liverMinus.bw
         priority 12
         negateValues on
 
         track encode4RegTxnMusclePlus
         type bigWig
         shortLabel muscle +
         longLabel Avg. + strand total RNA-seq level of 35 muscle experiments (tissues and primary cells only)
         color 137,135,170
         parent encode4RegTxn
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/musclePlus.bw
         priority 13
 
         track encode4RegTxnMuscleMinus
         type bigWig
         shortLabel muscle -
         longLabel Avg. - strand total RNA-seq level of 35 muscle experiments (tissues and primary cells only)
         color 137,135,170
         parent encode4RegTxn
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/muscleMinus.bw
         priority 14
         negateValues on
 
         track encode4RegTxnAllBloodPlus
         type bigWig
         shortLabel blood + (all biosamples)
         longLabel Avg. + strand total RNA-seq level of 71 blood experiments (all biosamples)
         color 254,75,173
         parent encode4RegTxn off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/bloodPlusAll.bw
         priority 15
 
         track encode4RegTxnAllBloodMinus
         type bigWig
         shortLabel blood - (all biosamples)
         longLabel Avg. - strand total RNA-seq level of 71 blood experiments (all biosamples)
         color 254,75,173
         parent encode4RegTxn off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/bloodMinusAll.bw
         priority 16
         negateValues on
 
         track encode4RegTxnAllEmbryoPlus
         type bigWig
         shortLabel embryo + (all biosamples)
         longLabel Avg. + strand total RNA-seq level of 12 embryo experiments (all biosamples)
         color 118,158,101
         parent encode4RegTxn off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/embryoPlusAll.bw
         priority 17
 
         track encode4RegTxnAllEmbryoMinus
         type bigWig
         shortLabel embryo - (all biosamples)
         longLabel Avg. - strand total RNA-seq level of 12 embryo experiments (all biosamples)
         color 118,158,101
         parent encode4RegTxn off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/embryoMinusAll.bw
         priority 18
         negateValues on
 
         track encode4RegTxnAllSpleenPlus
         type bigWig
         shortLabel spleen + (all biosamples)
         longLabel Avg. + strand total RNA-seq level of 4 spleen experiments (all biosamples)
         color 136,157,97
         parent encode4RegTxn off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/spleenPlusAll.bw
         priority 19
 
         track encode4RegTxnAllSpleenMinus
         type bigWig
         shortLabel spleen - (all biosamples)
         longLabel Avg. - strand total RNA-seq level of 4 spleen experiments (all biosamples)
         color 136,157,97
         parent encode4RegTxn off
         bigDataUrl /gbdb/mm10/encode4/regulation/organAve/spleenMinusAll.bw
         priority 20
         negateValues on
 
 
 include encode4RegEpigenetics.ra
 include encode4RegRnaSeq.ra
 include encode4RegTfChip.ra