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Series GSE31485 Query DataSets for GSE31485
Status Public on Oct 06, 2011
Title CTCF promotes RNA pol II pausing and links DNA methylation to alternative splicing [ChIP-Seq]
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The goal of this study was to investigate the role of intragenic CTCF in alternative pre-mRNA splicing through a combined CTCF-ChIP-seq and RNA-seq approach. CTCF depletion led to decreased inclusion of weak upstream exons.
Overall design CTCF ChIP-seq was performed in BJAB and BL41 B cell lines and normalized relative to Rabbit Ig control IP-seq reads. RNA-seq was performed in BJAB and BL41 cells transduced with shRNA against CTCF or RFP as a control, and in untransduced cells as well.
Contributor(s) Shukla S, Oberdoerffer S, Sandberg R
Citation(s) 21964334
Submission date Aug 18, 2011
Last update date May 15, 2019
Contact name Shalini Oberdoerffer
Phone 301-846-7104
Organization name National Cancer Institute
Street address 1050 Boyles Street
City Frederick
State/province MD
ZIP/Postal code 21702
Country USA
Platforms (1)
GPL10999 Illumina Genome Analyzer IIx (Homo sapiens)
Samples (4)
GSM782157 BJAB_Rabbit
GSM782158 BL41_CTCF
This SubSeries is part of SuperSeries:
GSE31278 CTCF promotes RNA pol II pausing and links DNA methylation to alternative splicing
SRA SRP007867
BioProject PRJNA154051

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Supplementary file Size Download File type/resource
GSE31485_RAW.tar 810.0 Kb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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