missMethyl: an R package for analyzing data from Illumina's HumanMethylation450 platform

Bioinformatics. 2016 Jan 15;32(2):286-8. doi: 10.1093/bioinformatics/btv560. Epub 2015 Sep 30.


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: alicia.oshlack@mcri.edu.au

Supplementary information: Supplementary data are available at Bioinformatics online.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Computational Biology / methods*
  • CpG Islands
  • DNA Methylation*
  • Genome, Human*
  • Humans
  • Oligonucleotide Array Sequence Analysis / methods*
  • Software*