Park 2014, maps of transript ends and nucleosomes in yeast

Description

This serie consists of two samples types:

SMORE-seq technology used to map both ends of transcripts, transcription start sites (TSS) and polyadenilation sites (PAS), in yeast grown under normal conditions.
MNase-seq technology to map nucleosomes

SRA files were downloaded grom geo: serie GSE49026 and GSE52355

Input file format: SRA

From S. cerevisiae (Apr 2011 R64/sacCer3).

	Filename	Description	Feature	GEO-ID
1	GSM1192567.sga	TSS mapping\|rep1	RNA-Seq	GSM1192567
2	GSM1192569.sga	TSS mapping\|rep2	RNA-Seq	GSM1192569
3	GSM1192571.sga	TSS mapping\|rep3	RNA-Seq	GSM1192571
4	GSM1192568.sga	Polyadenylation sites mapping\|rep1	RNA-Seq	GSM1192568
5	GSM1192570.sga	Polyadenylation sites mapping\|rep2	RNA-Seq	GSM1192570
6	GSM1192572.sga	Polyadenylation sites mapping\|rep3	RNA-Seq	GSM1192572
7	GSM1263832.sga	Nucleosome mapping	MNase-Seq	GSM1263832

SRA files were dowloaded from GEO and processed with in-house software to make SGA files.

Park D, Morris AR, Battenhouse A, Iyer VR.
Simultaneous mapping of transcript ends at single-nucleotide resolution and identification of widespread promoter-associated non-coding RNA governed by TATA elements. Nucleic Acids Res 2014 Apr;42(6):3736-49. PMID: 24413663
GEO series GSE49026 SMORE-seq maps both ends of transcripts and identifies widespread promoter-associated non-coding RNA governed by TATA elements. and GSE52355 Nucleosome positioning in Yeast