Improved filtering of DNA methylation microarray data by detection p values and its impact on downstream analyses.

Published in: Clinical epigenetics (2019)

We provide guidance for filtering both 450K and EPIC microarrays as an essential preprocessing step to reduce spurious values. An implementation (including a function compatible with objects from the popular minfi package) was added to ewastools, an R package for comprehensive quality control of DNA methylation microarrays. Scripts to reproduce all analyses are available at doi.org/10.5281/zenodo.1443561 .

Keyphrases

dna methylation
quality control
genome wide
gene expression
primary care
healthcare
electronic health record
quality improvement
loop mediated isothermal amplification
big data
label free
copy number
machine learning