EPD viewer for D. melanogaster (Aug 2014 BDGP Rel6 + ISO1 MT/dm6), version 005

The EPD viewer for D. melanogaster 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 H3K4me3 centered H3K4me3 ChIP-seq tagsa 10 n/a GSM480156 BED S2 cells n/a n/agan10 20398323
2 Pol2 centered RNA Pol II ChIP-seq tagsb 10 n/a GSM480159 BED S2 cells n/a n/agan10 20398323
3 All CAGE (+) 5′ end of CAGE reads 1 + SRP001602 SRA all tissues merged all stages merged n/aSRP001602 24985915
track subset: Selected modENCODE CAGE samples
4 (+) Digestive System 5′ end of CAGE reads 1 + SRX142925, SRX142927 SRA digestive system adult n/aSRP001602 24985915
5 (+) Embryo 5′ end of CAGE reads 1 + SRP001602 SRA n/a mixed embryos n/aSRP001602 24985915
6 (+) Head 5′ end of CAGE reads 1 + SRP001602 SRA head adult n/aSRP001602 24985915
7 (+) Larvae 5′ end of CAGE reads 1 + SRP001602 SRA n/a mixed larvae n/aSRP001602 24985915
8 (+) Ovaries 5′ end of CAGE reads 1 + SRX142920, SRX142928 SRA ovaries adult n/aSRP001602 24985915
9 (+) Pupae 5′ end of CAGE reads 1 + SRX142945, SRX142955 SRA n/a mixed pupae n/aSRP001602 24985915
10 (+) Testes 5′ end of CAGE reads 1 + SRX142924 SRA testes adult n/aSRP001602 24985915
11 (-) Digestive System 5′ end of CAGE reads 1 − SRX142925, SRX142927 SRA digestive system adult n/aSRP001602 24985915
12 (-) Embryo 5′ end of CAGE reads 1 − SRP001602 SRA n/a mixed embryos n/aSRP001602 24985915
13 (-) Head 5′ end of CAGE reads 1 − SRP001602 SRA head adult n/aSRP001602 24985915
14 (-) Larvae 5′ end of CAGE reads 1 − SRP001602 SRA n/a mixed larvae n/aSRP001602 24985915
15 (-) Ovaries 5′ end of CAGE reads 1 − SRX142920, SRX142928 SRA ovaries adult n/aSRP001602 24985915
16 (-) Pupae 5′ end of CAGE reads 1 − SRX142945, SRX142955 SRA n/a mixed pupae n/aSRP001602 24985915
17 (-) Testes 5′ end of CAGE reads 1 − SRX142924 SRA testes adult n/aSRP001602 24985915
18 All CAGE (-) 5′ end of CAGE reads 1 − SRP001602 SRA all tissues merged all stages merged n/aSRP001602 24985915
19 EPDnew promoters EPDnew promoters v. 005 1c n/ad n/a n/a n/a n/a n/aepd 23193273
atags were centered by 60 bp (ends were shifted 60 bp downstream or upstream if on the + or − strand respectively)
btags were centered by 40 bp
cthe thick part represents the TSS plus the 10 bp downstream while the thin part represents the 49 bp upstream of the TSS
dpromoters 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