An evaluation of analysis pipelines for DNA methylation profiling using the Illumina HumanMethylation450 BeadChip platform

@inproceedings{Marabita2013AnEO,
  title={An evaluation of analysis pipelines for DNA methylation profiling using the Illumina HumanMethylation450 BeadChip platform},
  author={Francesco Marabita and Malin Almgren and Mal{\'e}ne E. Lindholm and Sabrina Ruhrmann and Fredrik Fagerstr{\"o}m-Billai and Maja Jagodic and Carl Johan Sundberg and Tomas J. Ekstr{\"o}m and Andrew E. Teschendorff and Jesper Tegn{\'e}r and David Gomez-Cabrero},
  booktitle={Epigenetics},
  year={2013}
}
The proper identification of differentially methylated CpGs is central in most epigenetic studies. The Illumina HumanMethylation450 BeadChip is widely used to quantify DNA methylation; nevertheless, the design of an appropriate analysis pipeline faces severe challenges due to the convolution of biological and technical variability and the presence of a signal bias between Infinium I and II probe design types. Despite recent attempts to investigate how to analyze DNA methylation data with such… CONTINUE READING