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450K-array analysis of chronic lymphocytic leukemia cells reveals global DNA methylation to be relatively stable over time and similar in resting and proliferative compartments
- Source :
- Leukemia. 27:150-158
- Publication Year :
- 2012
- Publisher :
- Springer Science and Business Media LLC, 2012.
-
Abstract
- In chronic lymphocytic leukemia (CLL), the microenvironment influences gene expression patterns; however, knowledge is limited regarding the extent to which methylation changes with time and exposure to specific microenvironments. Using high-resolution 450K arrays, we provide the most comprehensive DNA methylation study of CLL to date, analyzing paired diagnostic/follow-up samples from IGHV-mutated/untreated and IGHV-unmutated/treated patients (n=36) and patient-matched peripheral blood and lymph node samples (n=20). On an unprecedented scale, we revealed 2239 differentially methylated CpG sites between IGHV-mutated and unmutated patients, with the majority of sites positioned outside annotated CpG islands. Intriguingly, CLL prognostic genes (for example, CLLU1, LPL, ZAP70 and NOTCH1), epigenetic regulator (for example, HDAC9, HDAC4 and DNMT3B), B-cell signaling (for example, IBTK) and numerous TGF-β and NF-κB/TNF pathway genes were alternatively methylated between subgroups. Contrary, DNA methylation over time was deemed rather stable with few recurrent changes noted within subgroups. Although a larger number of non-recurrent changes were identified among IGHV-unmutated relative to mutated cases over time, these equated to a low global change. Similarly, few changes were identified between compartment cases. Altogether, we reveal CLL subgroups to display unique methylation profiles and unveil methylation as relatively stable over time and similar within different CLL compartments, implying aberrant methylation as an early leukemogenic event.
- Subjects :
- Male
Cancer Research
Chronic lymphocytic leukemia
Immunoglobulin Variable Region
Biology
Cohort Studies
Biomarkers, Tumor
medicine
Humans
Epigenetics
Aged
Cell Proliferation
Oligonucleotide Array Sequence Analysis
B-Lymphocytes
Gene Expression Profiling
ZAP70
DNA, Neoplasm
Hematology
Methylation
DNA Methylation
Middle Aged
Prognosis
medicine.disease
Leukemia, Lymphocytic, Chronic, B-Cell
Gene expression profiling
Leukemia
Oncology
CpG site
Case-Control Studies
DNA methylation
Immunology
Disease Progression
Cancer research
CpG Islands
Female
Immunoglobulin Heavy Chains
Genome-Wide Association Study
Subjects
Details
- ISSN :
- 14765551 and 08876924
- Volume :
- 27
- Database :
- OpenAIRE
- Journal :
- Leukemia
- Accession number :
- edsair.doi.dedup.....f65c83f1c065130f378ecc4032d0155a