Park 2014, maps of transript ends and nucleosomes in yeast

Description

This serie consists of two samples types:

Source

SRA files were downloaded grom geo: serie GSE49026 and GSE52355


Input file format: SRA

Samples

From Yeast Apr 2011 (NCBI3.1/sacCer3) Assembly

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

Technical Notes

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

References:

  1. 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
  2. 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