Gene set enrichment analysis for genome-wide DNA methylation data
Jovana Maksimovic, Alicia Oshlack, Belinda Phipson
GENOME BIOLOGY | BMC | Published : 2021
DNA methylation is one of the most commonly studied epigenetic marks, due to its role in disease and development. Illumina methylation arrays have been extensively used to measure methylation across the human genome. Methylation array analysis has primarily focused on preprocessing, normalization, and identification of differentially methylated CpGs and regions. GOmeth and GOregion are new methods for performing unbiased gene set testing following differential methylation analysis. Benchmarking analyses demonstrate GOmeth outperforms other approaches, and GOregion is the first method for gene set testing of differentially methylated regions. Both methods are publicly available in the missMet..View full abstract
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Awarded by National Health and Medical Research Council (NHMRC)
BP is supported by an Emerging Leader Investigator Grant (GNT1175653) from the National Health and Medical Research Council (NHMRC). AO is supported by NHMRC GNT1126157. The funding body did not play any role in the study design, analysis, interpretation of data or writing of the manuscript.