title: Analysis pipelines and packages for Infinium HumanMethylation450 BeadChip (450k) data.
abstract: The Illumina HumanMethylation450 BeadChip has become a popular platform for interrogating DNA methylation in epigenome-wide association studies (EWAS) and related projects as well as resource efforts such as the International Cancer Genome Consortium (ICGC) and the International Human Epigenome Consortium (IHEC). This has resulted in an exponential increase of 450k data in recent years and triggered the development of numerous integrated analysis pipelines and stand-alone packages. This review will introduce and discuss the currently most popular pipelines and packages and is particularly aimed at new 450k users.
authors.affiliation: UCL Cancer Institute, University College London, London WC1E 6BT, UK. Electronic address: tiffany.morris@ucl.ac.uk.
authors.forename: Tiffany J
authors.initials: TJ
authors.lastname: Morris
authors.affiliation: UCL Cancer Institute, University College London, London WC1E 6BT, UK.
authors.forename: Stephan
authors.initials: S
authors.lastname: Beck
mesh_terms: D018899:CpG Islands; D019175:DNA Methylation; D057890:Epigenomics / Q000379:methods; D016678:Genome; D015894:Genome, Human; D006801:Humans; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D012984:Software
keywords: 450k BeadChip; Analysis pipelines; DNA methylation; EWAS; Epigenetics; HumanMethylation450