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Series GSE14417 Query DataSets for GSE14417
Status Public on Jan 15, 2009
Title Genome-wide DNA methylation in CEBPA mutant and CEBPA silenced AML
Organism Homo sapiens
Experiment type Methylation profiling by genome tiling array
Summary Acute Myeloid Leukemia (AML) is a heterogeneous disease from the molecular and biological standpoints, and even patients with a specific gene expression profile may present clinical and molecular heterogeneity. We studied the epigenetic profiles of a cohort of patients that shared a common gene expression profile but differed in that only half of them harbored mutations of the CEBPA locus, while the rest presented with silencing of this gene and co-expression of certain T cell markers. DNA methylation studies revealed that these two groups of patients could be readily segregated in an unsupervised fashion based on their DNA methylation profiles alone. Furthermore, CEBPA silencing was associated with the presence of an aberrant DNA hypermethylation signature, which was not present in the CEBPA mutant group. This aberrant hypermethylation occurred more frequently at sites within CpG islands. CEBPA silenced leukemias also displayed marked hypermethylation when compared with normal CD34+ hematopoietic cells, while CEBPA mutant cases showed only mild changes in DNA methylation when compared to these normal progenitors. Biologically, CEBPA silenced leukemias presented with a decreased response to myeloid growth factors in vitro.

Keywords: DNA methylation profiling
 
Overall design Direct comparison of DNA methylation in leukemic blasts from 8 patients with Acute Myeloid Leukemia (AML) carrying a CEBPA mutation and 8 patients with AML without CEBPA mutation but with silencing of CEBPA expression. Two control groups are included: 8 CD34+ bone marrow samples from healthy donors and 9 samples of T Acute Lymphoblastic Leukemia (T-ALL) patients.
 
Contributor(s) Figueroa ME, Wouters BJ, Melnick A, Delwel R
Citation(s) 19168792
Submission date Jan 14, 2009
Last update date Mar 20, 2012
Contact name Maria Eugenia Figueroa
E-mail(s) mef162@miami.edu
Organization name University of Miiami
Department Human Genetics
Lab Maria Figueroa
Street address 1501 NW 10th Ave, BRB 709A, Locator code C227
City Miami
State/province FL
ZIP/Postal code 33136
Country USA
 
Platforms (1)
GPL6604 HG17_HELP_Promoter
Samples (33)
GSM360189 2238 (CEBPAsilencedAML_#1)
GSM360190 2668 (CEBPAsilencedAML_#2)
GSM360191 2686 (CEBPAsilencedAML_#3)
Relations
BioProject PRJNA111499

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
GSE14417_RAW.tar 452.8 Mb (http)(custom) TAR (of PAIR)
Processed data included within Sample table

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