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Series GSE48514 Query DataSets for GSE48514
Status Public on Jul 04, 2013
Title A mouse model of endemic Burkitt translocations reveals the long-range boundaries of Ig-mediated oncogene deregulation
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Other
Summary Igh/Myc translocations underlie both sporadic Burkitt lymphoma (BL) and the endemic clinical form affecting African children infected with malaria. However, while sporadic translocations decapitate Myc from 5' proximal regulatory elements, most endemic events occur hundreds of kilobases away from Myc. The origin of these rearrangements and how they deregulate oncogenes at such distances remain unclear. Here we recapitulate endemic BL-like translocations in plasmacytomas from uracil N-glycosylase (UNG) deficient mice. We demonstrate that in these animals, rare endemic-like translocations arise from non-targeted DNA breaks at Myc loci. Deep-sequencing analyses revealed that the deregulated 3' Igh enhancer alpha physically interacts with and remodels 0.45Mb of translocated chromatin. The results thus explain the long-range deregulation of oncogenes in human and mouse B cell tumors.
 
Overall design ChIP-Seq, 4C, and 1 RNASeq samples used to characterize mouse plasmacytoma cell lines and in vitro activated mouse B cells. Biological replicates are present for many of the samples.
 
Contributor(s) Kovalchuk1 AL, Ansarah-Sobrinho C, Hakim O, Resch W, Tolarova H, du Bois W, Yamane A, Takizawa M, Klein I, Hager GL, Morse HC, Potter M, Nussenzweig MC, Casellas R
Citation(s) 22711821
Submission date Jul 03, 2013
Last update date May 15, 2019
Contact name Seolkyoung Jung
Organization name NIH
Department NIAMS
Lab biodata mining and discovery section
Street address 10 Center Dr
City bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platforms (2)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (34)
GSM1180095 mouse/in vitro activated B cell/H3K36me2/rep1
GSM1180096 mouse/in vitro activated B cell/H4K8Ac/rep1
GSM1180097 mouse/in vitro activated B cell/H2BK5Ac/rep1
Relations
BioProject PRJNA210419
SRA SRP026535

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Supplementary file Size Download File type/resource
GSE48514_RAW.tar 657.5 Mb (http)(custom) TAR (of TXT, WIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
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