Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Detection of aberrant DNA methylation in colorectal carcinoma samples compared to normal human colon

ABSTRACT: To globally define methylation-’prone’ and -’protected’ CpG islands in colorectal carcinoma we analyzed the methylation status of 23,000 CpG islands of the human genome in ten coleorectal carcinoma samples as well as normal colon 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 colorectal carcinoma samples was compared to the enriched material from normal colon to identify aberrantly methylated regions.

ORGANISM(S): Homo sapiens

SUBMITTER: Claudia Gebhard 

PROVIDER: E-GEOD-17512 | biostudies-arrayexpress |

REPOSITORIES: biostudies-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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