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Series GSE31110 Query DataSets for GSE31110
Status Public on Nov 27, 2012
Title Recruitment of MYC to target genes in ramos and mutu3 cells
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by genome tiling array
Summary Follicular lymphomas and diffuse large B-cell lymphomas have markedly different biological phenotypes and yet all originate from mature, germinal center B-cells. We hypothesized that alterations in DNA methylation patterning might help explain the clinical heterogeneity of these diseases. We report that intra- and inter-individual patient heterogeneity in cytosine methylation is associated with disease severity, and that methylation heterogeneity originates in germinal centers and is amplified during disease progression. Abnormal methylation patterns differ between chromosomal regions and depend on local gene density and the methylation status of neighboring genes. Lymphomagenic transcriptional regulators, such as BCL6, MYC and EZH2, perturb DNA methylation in a target gene-specific manner. Furthermore, aberrant epigenetic states – especially hypomethylation – tend to spread along DNA in a non-specific manner while insulator elements like CTCF inhibit such spreading. Our findings suggest mechanisms through which altered cytosine methylation contributes to the distinct phenotypes of tumors derived from mature B-cells.
Overall design Identification of MYC target genes in Burkitt lymphomas by ChIP-on-chip. MYC ChIP-on-chip was done in two Burkitt Lymphoma (BL) cell lines (ramos and mutu3) in duplicate.

This submission represents the ChIP-chip component of the study.
Contributor(s) De S, Shaknovich R, Riester M, Elemento O, Geng H, Kormaksson M, Jiang Y, Wollcock B, Johnson N, Polo JM, Gascoyne RD, Melnick A, Michor F
Citation(s) 23326238
Submission date Aug 01, 2011
Last update date Feb 26, 2013
Contact name Huimin Geng
Organization name UCSF
Department Department of Laboratory Medicine
Street address 513 Parnassus Ave., MSB S-1480
City San Francisco
State/province CA
ZIP/Postal code 94143
Country USA
Platforms (1)
GPL8275 Cornell Human promoter 37K
Samples (4)
GSM770490 MYC ChIP-chip in ramos cells, replicate 1
GSM770491 MYC ChIP-chip in ramos cells, replicate 2
GSM770492 MYC ChIP-chip in mutu3 cells, replicate 1
BioProject PRJNA144677

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
GSE31110_RAW.tar 53.5 Mb (http)(custom) TAR (of PAIR)
Processed data included within Sample table

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