Transcriptomics

Dataset Information

4

Detection of aberrant DNA methylation in AML cell lines compared to normal human monocytes


ABSTRACT: To globally define methylation-’prone’ and -’protected’ CpG islands in leukemia, we analyzed the methylation status of 23,000 CpG islands of the human genome in two acute leukemia cell lines as well as normal blood monocytes using our previously described methyl-CpG immunoprecipitation (MCIp) technique (Gebhard et al. 2006; Schilling and Rehli 2007). This method enriches for highly CpG methylated DNA that can be directly applied to fluorescent labeling and oligonucleotide microarray hybridization without an additional amplification step. Keywords: MCIp-on-Chip; comparative genomic hybridization CpG-methylated genomic DNA was enriched using methyl-CpG immunoprecipitation (MCIp). On each microarray, the enriched material from leukemia cell lines was compared to the enriched material from normal blood monocytes to identify aberrantly methylated regions. Three biological replicates were analysed for each cell line.

ORGANISM(S): Homo sapiens  

SUBMITTER: Claudia Gebhard  Michael Rehli 

PROVIDER: E-GEOD-17455 | ArrayExpress | 2010-06-05

SECONDARY ACCESSION(S): GSE17455PRJNA118727

REPOSITORIES: GEO, ArrayExpress

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Publications

General transcription factor binding at CpG islands in normal cells correlates with resistance to de novo DNA methylation in cancer cells.

Gebhard Claudia C   Benner Chris C   Ehrich Mathias M   Schwarzfischer Lucia L   Schilling Elmar E   Klug Maja M   Dietmaier Wolfgang W   Thiede Christian C   Holler Ernst E   Andreesen Reinhard R   Rehli Michael M  

Cancer research 20100209 4


Aberrant DNA methylation at CpG islands is thought to contribute to cancer initiation and progression, but mechanisms that establish and maintain DNA methylation status during tumorigenesis or normal development remain poorly understood. In this study, we used methyl-CpG immunoprecipitation to generate comparative DNA methylation profiles of healthy and malignant cells (acute leukemia and colorectal carcinoma) for human CpG islands across the genome. While searching for sequence patterns that ch  ...[more]

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