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EPD viewer for M. mulatta (Nov 2015 BCM Mmul_8.0.1/rheMac8), version 001

The EPD viewer for M. mulatta is made of the tracks given in the table below. Note that when strand is n/a, it means that signal applies to both strands.

UCSC track name Track description Track resolution [bp] Strand Original dataset Raw format Tissue Stage/Time point Condition MGA series name PMID
1 All CAGE (+) 5′ end of CAGE reads 1 + FANTOM5 BAM all adult tissues merged n/a n/afrancescatto17 29087374
track subset: Selected FANTOM CAGE samples
2 (+) Amygdala 5′ end of CAGE reads 1 + FANTOM5 BAM amygdala n/a n/afrancescatto17 29087374
3 (+) CaudateNucleus 5′ end of CAGE reads 1 + FANTOM5 BAM caudate nucleus n/a n/afrancescatto17 29087374
4 (+) Cerebellum 5′ end of CAGE reads 1 + FANTOM5 BAM cerebellum n/a n/afrancescatto17 29087374
5 (+) Globus Pallidus 5′ end of CAGE reads 1 + FANTOM5 BAM globus pallidus n/a n/afrancescatto17 29087374
6 (+) Hippocampus 5′ end of CAGE reads 1 + FANTOM5 BAM hippocampus n/a n/afrancescatto17 29087374
7 (+) LocusCoeruleus 5′ end of CAGE reads 1 + FANTOM5 BAM locus coeruleus n/a n/afrancescatto17 29087374
8 (+) MedFrontaGyrus 5′ end of CAGE reads 1 + FANTOM5 BAM medial frontal gyrus n/a n/afrancescatto17 29087374
9 (+) MedTemporGyrus 5′ end of CAGE reads 1 + FANTOM5 BAM medial temporal gyrus n/a n/afrancescatto17 29087374
10 (+) MedullOblongat 5′ end of CAGE reads 1 + FANTOM5 BAM medulla oblongata n/a n/afrancescatto17 29087374
11 (+) OccipitCortex 5′ end of CAGE reads 1 + FANTOM5 BAM occipital cortex n/a n/afrancescatto17 29087374
12 (+) ParietalGyrus 5′ end of CAGE reads 1 + FANTOM5 BAM parietal gyrus n/a n/afrancescatto17 29087374
13 (+) Putamen 5′ end of CAGE reads 1 + FANTOM5 BAM putamen n/a n/afrancescatto17 29087374
14 (+) SpinalCord 5′ end of CAGE reads 1 + FANTOM5 BAM spinal cord n/a n/afrancescatto17 29087374
15 (+) SubstantNigra 5′ end of CAGE reads 1 + FANTOM5 BAM substantia nigra n/a n/afrancescatto17 29087374
16 (+) Thalamus 5′ end of CAGE reads 1 + FANTOM5 BAM thalamus n/a n/afrancescatto17 29087374
17 (-) Amygdala 5′ end of CAGE reads 1 FANTOM5 BAM amygdala n/a n/afrancescatto17 29087374
18 (-) CaudateNucleus 5′ end of CAGE reads 1 FANTOM5 BAM caudate nucleus n/a n/afrancescatto17 29087374
19 (-) Cerebellum 5′ end of CAGE reads 1 FANTOM5 BAM cerebellum n/a n/afrancescatto17 29087374
20 (-) GlobusPallidus 5′ end of CAGE reads 1 FANTOM5 BAM globus pallidus n/a n/afrancescatto17 29087374
21 (-) Hippocampus 5′ end of CAGE reads 1 FANTOM5 BAM hippocampus n/a n/afrancescatto17 29087374
22 (-) LocusCoeruleus 5′ end of CAGE reads 1 FANTOM5 BAM locus coeruleus n/a n/afrancescatto17 29087374
23 (-) MedFrontaGyrus 5′ end of CAGE reads 1 FANTOM5 BAM medial frontal gyrus n/a n/afrancescatto17 29087374
24 (-) MedTemporGyrus 5′ end of CAGE reads 1 FANTOM5 BAM medial temporal gyrus n/a n/afrancescatto17 29087374
25 (-) MedullOblongat 5′ end of CAGE reads 1 FANTOM5 BAM medulla oblongata n/a n/afrancescatto17 29087374
26 (-) OccipitCortex 5′ end of CAGE reads 1 FANTOM5 BAM occipital cortex n/a n/afrancescatto17 29087374
27 (-) ParietalGyrus 5′ end of CAGE reads 1 FANTOM5 BAM parietal gyrus n/a n/afrancescatto17 29087374
28 (-) Putamen 5′ end of CAGE reads 1 FANTOM5 BAM putamen n/a n/afrancescatto17 29087374
29 (-) SpinalCord 5′ end of CAGE reads 1 FANTOM5 BAM spinal cord n/a n/afrancescatto17 29087374
30 (-) SubstantNigra 5′ end of CAGE reads 1 FANTOM5 BAM substantia nigra n/a n/afrancescatto17 29087374
31 (-) Thalamus 5′ end of CAGE reads 1 FANTOM5 BAM thalamus n/a n/afrancescatto17 29087374
32 All CAGE (-) 5′ end of CAGE reads 1 FANTOM5 BAM all adult tissues merged n/a n/afrancescatto17 29087374
33 EPDnew promoters EPDnew promoters v. 001 1a n/ab n/a n/a n/a n/a n/aepd 23193273
athe thick part represents the TSS plus the 10 bp downstream while the thin part represents the 49 bp upstream of the TSS
bpromoters on the + and − strands are combined in a single track, with promoter orientation defined by the position of the thick part relative to the thin part

These tracks are available at UCSC as a public hub named "EPD Viewer Hub".

Last update October 2019