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| 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
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| 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.
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| 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.
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| 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 |
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| Submission date |
Aug 01, 2011 |
| Last update date |
Feb 26, 2013 |
| Contact name |
Huimin Geng |
| E-mail(s) |
huimin.geng@ucsf.edu
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| Organization name |
UCSF
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| Department |
Department of Laboratory Medicine
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| Street address |
513 Parnassus Ave., MSB S-1480
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| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94143 |
| Country |
USA |
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| Platforms (1) |
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| Samples (4)
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| 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 |
| GSM770493 |
MYC ChIP-chip in mutu3 cells, replicate 2 |
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| Relations |
| BioProject |
PRJNA144677 |
| 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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