a328f4122a06272bb3d76a1f8297e8f5f264e70e
lrnassar
  Thu Feb 5 16:51:06 2026 -0800
First draft of the human methylation atlas track, refs #36826

diff --git src/hg/makeDb/trackDb/human/humanMethylationAtlas.ra src/hg/makeDb/trackDb/human/humanMethylationAtlas.ra
new file mode 100755
index 00000000000..a503656c61e
--- /dev/null
+++ src/hg/makeDb/trackDb/human/humanMethylationAtlas.ra
@@ -0,0 +1,49 @@
+track humanMethylationAtlasSummary
+priority 1
+parent dnaMethylation
+shortLabel Human Methylation Atlas Summary
+longLabel Human Methylation Atlas summary regions and enhancers
+visibility pack
+compositeTrack on
+type bigBed 4 .
+dataVersion Data release version 2
+showCfg on
+html humanMethylationAtlas.html
+
+track hmaSummaryUnmethylated
+priority 1
+type bigBed 9 .
+itemRgb on
+shortLabel Unmethylated regions
+longLabel All unmethylated regions
+parent humanMethylationAtlasSummary on
+bigDataUrl /gbdb/$D/dnaMethylationAtlas/hmaSummaryUnmethylated.bb
+visibility pack
+filterLabel.name Cell/Tissue Type
+filterValues.name Adipocytes,Bladder-Ep,Blood-B,Blood-Granul,Blood-Mono+Macro,Blood-NK,Blood-T,Bone-Osteob,Breast-Basal-Ep,Breast-Luminal-Ep,Colon-Ep,Colon-Fibro,Dermal-Fibro,Endothel,Epid-Kerat,Eryth-prog,Fallopian-Ep,Gallbladder,Gastric-Ep,Head-Neck-Ep,Heart-Cardio,Heart-Fibro,Kidney-Ep,Liver-Hep,Lung-Ep-Alveo,Lung-Ep-Bron,Neuron,Oligodend,Ovary-Ep,Pancreas-Acinar,Pancreas-Alpha,Pancreas-Beta,Pancreas-Delta,Pancreas-Duct,Prostate-Ep,Skeletal-Musc,Small-Int-Ep,Smooth-Musc,Thyroid-Ep
+
+track hmaSummaryPutEnhancers
+priority 2
+type bigBed 9 .
+itemRgb on
+shortLabel Putative enhancers
+longLabel Putative enhancers from unmethylated regions
+parent humanMethylationAtlasSummary on
+bigDataUrl /gbdb/$D/dnaMethylationAtlas/hmaSummaryPutEnhancers.bb
+visibility pack
+filterLabel.name Cell/Tissue Type
+filterValues.name Bladder-Ep,Blood-B,Blood-Granul,Blood-Mono+Macro,Blood-NK,Blood-T,Breast-Basal-Ep,Breast-Luminal-Ep,Colon-Ep,Colon-Fibro,Dermal-Fibro,Endothel,Epid-Kerat,Gastric-Ep,Head-Neck-Ep,Heart-Cardio,Heart-Fibro,Kidney-Ep,Liver-Hep,Lung-Ep-Alveo,Lung-Ep-Bron,Neuron,Oligodend,Pancreas-Acinar,Pancreas-Alpha,Pancreas-Beta,Pancreas-Delta,Pancreas-Duct,Prostate-Ep,Skeletal-Musc,Small-Int-Ep,Thyroid-Ep
+
+track hmaSummaryU250
+priority 3
+type bigBed 9 .
+itemRgb on
+shortLabel Top 250 U markers per cell type
+longLabel Top 250 unmethylated regions specific to each cell type
+parent humanMethylationAtlasSummary on
+bigDataUrl /gbdb/$D/dnaMethylationAtlas/hmaSummaryU250.bb
+visibility pack
+filterLabel.name Cell/Tissue Type
+filterValues.name Adipocytes,Bladder-Ep,Blood-B,Blood-Granul,Blood-Mono+Macro,Blood-NK,Blood-T,Bone-Osteob,Breast-Basal-Ep,Breast-Basal-Ep:Breast-Luminal-Ep,Breast-Luminal-Ep,Colon-Ep,Colon-Ep:Gastric-Ep:Small-Int-Ep,Colon-Ep:Small-Int-Ep,Colon-Fibro,Colon-Fibro:Heart-Fibro,Dermal-Fibro,Endothel,Epid-Kerat,Eryth-prog,Fallopian-Ep,Fallopian-Ep:Ovary-Ep,Gallbladder,Gastric-Ep,Gastric-Ep:Small-Int-Ep,Head-Neck-Ep,Heart-Cardio,Heart-Cardio:Heart-Fibro,Heart-Cardio:Skeletal-Musc:Smooth-Musc,Heart-Fibro,Kidney-Ep,Liver-Hep,Lung-Ep-Alveo,Lung-Ep-Alveo:Lung-Ep-Bron,Lung-Ep-Bron,Neuron,Neuron:Oligodend,Oligodend,Ovary-Ep,Pancreas-Acinar,Pancreas-Alpha,Pancreas-Alpha:Pancreas-Beta:Pancreas-Delta,Pancreas-Beta,Pancreas-Delta,Pancreas-Duct,Prostate-Ep,Skeletal-Musc,Skeletal-Musc:Smooth-Musc,Small-Int-Ep,Smooth-Musc,Thyroid-Ep
+
+include methylationAtlasSignals.ra