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Series GSE85046 Query DataSets for GSE85046
Status Public on Jun 30, 2018
Title Transcription start site positioning is not affected by +1 nucleosome depletion
Organism Schizosaccharomyces pombe
Experiment type Expression profiling by high throughput sequencing
Summary The relationship between the positioning of nucleosomes and transcription start sites (TSSs) is unclear. Here, we report that deletion of the Fun30 class chromatin remodelers Fft2 and Fft3 leads to depletion of +1 nucleosome occupancy. Strikingly, in the vast majority of cases, this depletion had no impact on the placement of the TSS, favoring a model where TSS placement is primarily DNA sequence-driven. 
Overall design 5'-Cap Analysis of Gene Expression (CAGE) of S. pombe wild type and fft2fft3 double mutant cells, in triplicates.
Contributor(s) Thieffry A, Steglich B, Persson J, Boyd M, Bornholdt J, Prasad P, Nielsen O, Ekwall K, Sandelin A
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Submission date Aug 01, 2016
Last update date May 15, 2019
Contact name Axel Thieffry
Organization name BioPhero-FMC
Department R&D
Street address Lersø Parkallé 42-44
City Copenhagen
State/province Hovedstaden
ZIP/Postal code 2100
Country Denmark
Platforms (1)
GPL13988 Illumina HiSeq 2000 (Schizosaccharomyces pombe)
Samples (6)
GSM2256840 wt R1
GSM2256841 wt R2
GSM2256842 wt R3
BioProject PRJNA336018
SRA SRP080753

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource 5.5 Mb (ftp)(http) BW 10.7 Mb (ftp)(http) BW
GSE85046_RAW.tar 4.7 Mb (http)(custom) TAR (of TXT)
GSE85046_TC_trimmed_pooled_TPM_chr123.txt.gz 1.8 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file

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