ChAMP: updated methylation analysis pipeline for Illumina BeadChips

SUMMARY: The Illumina Infinium HumanMethylationEPIC BeadChip is the new platform for high-throughput DNA methylation analysis, effectively doubling the coverage compared to the older 450 K array. Here we present a significantly updated and improved version of the Bioconductor package ChAMP, which can be used to analyze EPIC and 450k data. Many enhanced functionalities have been added, including correction for cell-type heterogeneity, network analysis and a series of interactive graphical user interfaces. AVAILABILITY AND IMPLEMENTATION: ChAMP is a BioC package available from https://bioconductor.org/packages/release/bioc/html/ChAMP.html. CONTACT: a.teschendorff@ucl.ac.uk or s.beck@ucl.ac.uk or…

• NI
  National Institute on Handicapped Research
• NI
  National Institute for Health and Care Research
• UC
  University College London
• CS
  Commonwealth Scholarship Commission
• UC
  University College London Hospitals NHS Foundation Trust
• MR
  Medical Research Council

  Awards: MR/M025411/1, MR/M025411/1