Quantification Methods for Methylation Levels in Illumina Arrays

Duchwan Ryu; Hao Shen

doi:10.1007/978-1-0716-1994-0_1

Quantification Methods for Methylation Levels in Illumina Arrays

Methods Mol Biol. 2022:2432:1-14. doi: 10.1007/978-1-0716-1994-0_1.

Authors

Duchwan Ryu¹, Hao Shen²

Affiliations

¹ Department of Statistics and Actuarial Science, Northern Illinois University, DeKalb, IL, USA. dryu@niu.edu.
² Department of Statistics and Actuarial Science, Northern Illinois University, DeKalb, IL, USA.

PMID: 35505203
DOI: 10.1007/978-1-0716-1994-0_1

Abstract

The genome-wide patterns of methylation levels and identifications of differentially methylated genetic loci or regions of CpG sites are being important, because the methylome has the potential for large effects in disease etiology. There are several quantification methods of methylation level at each CpG site for a given sample, which include β-value, M-value, and N-value. The performance of three quantification methods of methylation levels has been examined with simulation study and 27K Illumina array data for obesity.

Keywords: Identification of differential methylation; Measure of methylation level; Normalization of signal intensity.

MeSH terms

DNA Methylation*
Genetic Loci
Genome
High-Throughput Nucleotide Sequencing*
Protein Processing, Post-Translational