title: missMethyl: an R package for analyzing data from Illumina's HumanMethylation450 platform.
abstract: 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.
  
  
  METHODS
  missMethyl is an R package available from the Bioconductor project at www.bioconductor.org.
  
  
  BACKGROUND
  alicia.oshlack@mcri.edu.au
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: Bioinformatics Group, Murdoch Childrens Research Institute, Royal Children's Hospital, 50 Flemington Road, Parkville, Victoria, 3052, Australia.
authors.forename: Belinda
authors.initials: B
authors.lastname: Phipson
authors.affiliation: Bioinformatics Group, Murdoch Childrens Research Institute, Royal Children's Hospital, 50 Flemington Road, Parkville, Victoria, 3052, Australia.
authors.forename: Jovana
authors.initials: J
authors.lastname: Maksimovic
authors.affiliation: Bioinformatics Group, Murdoch Childrens Research Institute, Royal Children's Hospital, 50 Flemington Road, Parkville, Victoria, 3052, Australia.
authors.forename: Alicia
authors.initials: A
authors.lastname: Oshlack
mesh_terms: D019295:Computational Biology / Q000379:methods*; D018899:CpG Islands; D019175:DNA Methylation; D015894:Genome, Human; D006801:Humans; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D012984:Software