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Series GSE24827 Query DataSets for GSE24827
Status Public on Jan 21, 2011
Title Activation-induced cytidine deaminase induces reproducible DNA breaks at many non-Ig loci in activated B cells
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by genome tiling array
Summary After immunization or infection, activation-induced cytidine deaminase (AID) initiates diversification of immunoglobulin (Ig) genes in B cells, introducing mutations within the antigen binding V regions (somatic hypermutation, SHM) and double-strand DNA breaks (DSBs) into switch (S) regions, leading to antibody class switch recombination (CSR). Using a candidate approach, AID has been shown to initiate mutations at numerous non-Ig genes in B cells in Peyer’s patches. However, it is not known if during B cell activation, AID also induces DNA breaks at genes other than IgH genes, which would lead to genomic instability and malignancy. Using a non-biased genome-wide approach, we have identified hundreds of reproducible AID-dependent DSBs in mouse splenic B cells shortly after induction of CSR in culture. Most interestingly, AID induces DSBs at sites syntenic with sites of translocations, deletions, and amplifications found in human B cell lymphomas, including within the oncogene B cell lymphoma11a (bcl11a)/evi9. The AID-dependent DSBs are not restricted to transcribed regions, and they frequently occur within repeated sequence elements, including CA and non-CA repeats, and SINEs.
Overall design Comparison of Nbs1 binding sites in wild-type vs. aid-/- splenic B cells induced to undergo CSR; aid-dependent Nbs1 sites correlated with gene transcription (RNA Pol2).
Contributor(s) Staszewski O, Baker RE, Ucher AJ, Martier R, Stavnezer J, Guikema JE
Citation(s) 21255732
Submission date Oct 20, 2010
Last update date Mar 22, 2012
Contact name Richard E Baker
Phone 508-856-6046
Organization name University of Massachusetts Medical School
Department Microbiology & Physiological Systems
Street address 55 Lake Avenue North
City Worcester
State/province MA
ZIP/Postal code 01655
Country USA
Platforms (10)
GPL11075 Mouse ChIP 2.1M WG-T Set-10 (1 of 10)
GPL11090 Mouse ChIP 2.1M WG-T Set-10 (2 of 10)
GPL11091 Mouse ChIP 2.1M WG-T Set-10 (3 of 10)
Samples (60)
GSM611070 01_Nbs1_WT_rep1
GSM611071 01_Nbs1_WT_rep2
GSM611072 01_Nbs1_aid_rep1
BioProject PRJNA132039

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
GSE24827_RAW.tar 5.3 Gb (http)(custom) TAR (of PAIR)
Processed data included within Sample table

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