EPD viewer for S. cerevisiae (Apr 2011 R64/sacCer3), version 002

The EPD viewer for S. cerevisiae 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 Nucleosomes centered MNase-seq tagsa 10 n/a GSM1263832 SRA n/a n/a n/apark14 24413663
2 H3K4me3 centered H3K4me3 ChIP-seq tagsb 10 n/a GSE52339 SRA n/a all time points merged n/akuang14 25173176
3 H3K14ac centered H3K14ac ChIP-seq tagsb 10 n/a GSE52339 SRA n/a all time points merged n/akuang14 25173176
4 CAGE (+) 5′ end of CAGE reads 1 + GSM1192567, GSM1192569, GSM1192571 SRA n/a n/a n/apark14 24413663
5 CAGE (-) 5′ end of CAGE reads 1 − GSM1192567, GSM1192569, GSM1192571 SRA n/a n/a n/apark14 24413663
6 EPDnew promoters EPDnew promoters v. 002 1c n/ad n/a n/a n/a n/a n/aepd 23193273
atags were centered by 70 bp (ends were shifted 70 bp downstream or upstream if on the + or − strand respectively)
btags were centered by 75 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