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Series GSE61393 Query DataSets for GSE61393
Status Public on Nov 01, 2014
Title Ssu72 and Ser5P-RNAPII ChIPseq in hESCs. GROseq analysis in siCtrl and siSSu72 transfected hESCs.
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary Ssu72 is a Ser5P-RNAPII phosphatase, nevertheless few targets have been characterized and its role in mammal cells remains elusive. Using ChIPseq and GROseq technologies we aimed to identify Ssu72 targets in human embryonic stem cells.
Overall design For the ChIPseq experiments, H1 hESCs growing in mTeSR media were doubled fixed with DSG 2mM (45min) and FA 1% (20min) and processed to chromatin immunoprecipitation. For GROseq experiments, H1 hESCs were transfected with siCtrl or siSsu72 siRNAs using RNAimax (Invitrogene) for 48h. Then, run-on experiment was done with isolated nuclei. Nascent RNA purification and subsequent steps needed before sequencing were carried out essentially as described in Core et al, 2008, Science 319(5871): 1791-1792.
Contributor(s) Estaras C, Chen Y, Zhang L, Jones K
Citation(s) 25319827
Submission date Sep 12, 2014
Last update date May 15, 2019
Contact name conchi estaras
Organization name The Salk Institute
Department Regulatory Biology
Lab Jones lab
Street address 10010 N Torrey Pines Rd
City La Jolla, San Diego
State/province CA
ZIP/Postal code 92037
Country USA
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (4)
GSM1503826 Ssu72 ChIPseq
GSM1503827 Ser5P-RNAPII ChIPseq
GSM1503828 siCtrl GROseq
BioProject PRJNA260931
SRA SRP047084

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Supplementary file Size Download File type/resource
GSE61393_RAW.tar 498.5 Mb (http)(custom) TAR (of BIGWIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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