Copy number variation has little impact on bead-array-based measures of DNA methylation.

ABSTRACT:

Motivation

Integration of various genome-scale measures of molecular alterations is of great interest to researchers aiming to better define disease processes or identify novel targets with clinical utility. Particularly important in cancer are measures of gene copy number DNA methylation. However, copy number variation may bias the measurement of DNA methylation. To investigate possible bias, we analyzed integrated data obtained from 19 head and neck squamous cell carcinoma (HNSCC) tumors and 23 mesothelioma tumors.

Results

Statistical analysis of observational data produced results consistent with those anticipated from theoretical mathematical properties. Average beta value reported by Illumina GoldenGate (a bead-array platform) was significantly smaller than a similar me

SUBMITTER: Houseman EA 

PROVIDER: S-EPMC2723008 | biostudies-literature | 2009 Aug

REPOSITORIES: biostudies-literature