MissMethyl: An R package for analyzing data from Illumina's HumanMethylation450 platform

B Phipson; J Maksimovic; A Oshlack

Journal article

MissMethyl: An R package for analyzing data from Illumina's HumanMethylation450 platform

B Phipson, J Maksimovic, A Oshlack

Bioinformatics | OXFORD UNIV PRESS | Published : 2016

DOI: 10.1093/bioinformatics/btv560

Abstract

Summary: DNA methylation is one of the most commonly studied epigenetic modifications due to its role in both disease and development. The Illumina HumanMethylation450 BeadChip is a cost-effective way to profile >450 000 CpGs across the human genome, making it a popular platform for profiling DNA methylation. Here we introduce missMethyl, an R package with a suite of tools for performing normalization, removal of unwanted variation in differential methylation analysis, differential variability testing and gene set analysis for the 450K array. Availability and implementation: missMethyl is an R package available from the Bioconductor project at www.bioconductor.org. Contact: Supplementary inf..

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University of Melbourne Researchers

Belinda Phipson Author

Jovana Maksimovic Author

Alicia Oshlack Author

Grants

Funding Acknowledgements

This work was supported by Victorian State Government Operational Infrastructure Support and National Health and Medical Research Council grants APP1051481 and APP1051402 to A.O.