ENmix: a novel background correction method for Illumina HumanMethylation450 BeadChip.

ABSTRACT: The Illumina HumanMethylation450 BeadChip is increasingly utilized in epigenome-wide association studies, however, this array-based measurement of DNA methylation is subject to measurement variation. Appropriate data preprocessing to remove background noise is important for detecting the small changes that may be associated with disease. We developed a novel background correction method, ENmix, that uses a mixture of exponential and truncated normal distributions to flexibly model signal intensity and uses a truncated normal distribution to model background noise. Depending on data availability, we employ three approaches to estimate background normal distribution parameters using (i) internal chip negative controls, (ii) out-of-band Infinium I probe intensities or (iii) combined methylate

SUBMITTER: Xu Z 

PROVIDER: S-EPMC4756845 | biostudies-literature | 2016 Feb

REPOSITORIES: biostudies-literature