Comparison of pre-processing methods for Infinium HumanMethylation450 BeadChip array | Zendy

Yu-Jia Shiah | Zendy; Michael Fraser | Zendy; Robert G. Bristow | Zendy; Paul C. Boutros | Zendy

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Comparison of pre-processing methods for Infinium HumanMethylation450 BeadChip array

Author(s) -

Yu-Jia Shiah,

Michael Fraser,

Robert G. Bristow,

Paul C. Boutros

Publication year - 2017

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btx372

Subject(s) - replicate , computer science , sample (material) , dna methylation , computational biology , data mining , biology , genetics , statistics , mathematics , gene , gene expression , chemistry , chromatography

Microarrays are widely used to quantify DNA methylation because they are economical, require only small quantities of input DNA and focus on well-characterized regions of the genome. However, pre-processing of methylation microarray data is challenging because of confounding factors that include background fluorescence, dye bias and the impact of germline polymorphisms. Therefore, we present valuable insights and a framework for those seeking the most optimal pre-processing method through a data-driven approach.

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