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Series GSE55775 Query DataSets for GSE55775
Status Public on Aug 12, 2014
Title Promoter proximal pausing in response to stress in serum deprived mouse fibroblasts.
Organism Mus musculus
Experiment type Non-coding RNA profiling by high throughput sequencing
Summary We have employed short-capped RNA sequencing (sc-RNA-seq) in order to identify genes whose expression is regulated by promoter proximal pausing of RNA Polymerase II (RNAPI) in response to stress stimulation. We used serum-deprived mouse Swiss 3T3 fibroblasts, either untreated (control) or treated with anisomycin to induce the p38/MAP kinase pathway.
Overall design Serum starved (72 h 0.2% FCS) mouse 3T3 cells were treated with anisomycin (188.5 nM) for 1 h (in duplicates). Untreated, serum-starved cells were used as a control. We isolated nuclear RNA, performed size fractionation followed by isolation of short-capped RNAs (scRNA). scRNAs were subsequently converted into DNA library and sequenced.
Contributor(s) Anna S, Christian S
Citation(s) 25135956
Submission date Mar 11, 2014
Last update date May 15, 2019
Contact name Anna Sawicka
Organization name Max Planck Institure for Biophysical Chemistry
Department Dep. of Molecular Biology
Lab Cramer
Street address Am Fassberg 11
City Goettingen
ZIP/Postal code 37077
Country Germany
Platforms (2)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (4)
GSM1345949 scRNA_control_untreated_replicate1
GSM1345950 scRNA_control_untreated_replicate2
GSM1345951 scRNA_1hA_replicate1
This SubSeries is part of SuperSeries:
GSE55784 Genome-wide analysis of stress response in mouse fibroblasts
BioProject PRJNA240992
SRA SRP039956

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE55775_RAW.tar 120.6 Mb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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