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Series GSE43594 Query DataSets for GSE43594
Status Public on Oct 11, 2013
Title Genome-wide localization of Smc1, Smc3 and CTCF in mouse B cells.
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Immunoglobulin class switch recombination (CSR) is initiated by the transcription-coupled recruitment of activation induced cytidine deaminase (AID) to switch regions and by the subsequent generation and resolution of dsDNA breaks (DSBs). During, CSR the IgH locus undergoes dynamic three-dimensional structural changes in which promoters, enhancers and switch regions are brought to close proximity. Nevertheless, little is known about the underlying mechanisms. Here we show that during CSR, AID associates with subunits of cohesin, a complex previously implicated in DNA repair and in the formation of DNA loops between enhancers and promoters. By ChIP-Seq experiments, we find that Cohesin is dynamically recruited to the IgH locus during CSR and that knockdown of Cohesin or its regulatory subunits results in impaired CSR and abnormal DSB resolution. Our results are consistent with a model in which Cohesin controls the formation of long-range DNA loops at the IgH locus and the resolution of DSBs generated during CSR.
Overall design Smc1, Smc3 and CTCF were immunoprecipitated from resting or in vitro activated B cells.
Contributor(s) Thomas-Claudepierre A, Schiavo E, Heyer V, Fournier M, Robert I, Reina San-Martin B
Citation(s) 24145512
Submission date Jan 17, 2013
Last update date May 15, 2019
Contact name Anne-Sophie THOMAS
Organization name IGBMC
Street address 1 rue Laurent Fries
City Illkirch
State/province 67
ZIP/Postal code 67400
Country France
Platforms (2)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (8)
GSM1066040 stimulated_Smc1_CHIP-seq
GSM1066041 stimulated_Smc3_CHIP-seq
GSM1066042 stimulated_IgG_CHIP-seq
BioProject PRJNA186794
SRA SRP018024

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Supplementary file Size Download File type/resource
GSE43594_RAW.tar 1.5 Gb (http)(custom) TAR (of WIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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