SMETHILLIUM: spatial normalization method for Illumina infinium HumanMethylation BeadChip.
basic_science · Level V
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- Record sourced from PubMed, PMID 21493659.
- Also identified by DOI 10.1093/bioinformatics/btr187.
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Abstract
DNA methylation is a major epigenetic modification in human cells. Illumina HumanMethylation27 BeadChip makes it possible to quantify the methylation state of 27 578 loci spanning 14 495 genes. We developed a non-parametric normalization method to correct the spatial background noise in order to improve the signal-to-noise ratio. The prediction performance of the proposed method was assessed on three fully methylated samples and three fully unmethylated DNA samples. We demonstrate that the spatial normalization outperforms BeadStudio to predict the methylation state of a given locus. A R script and the data are available at the following address: http://bioinfo.curie.fr/projects/smethillium.
Medical subject headings
- DNA Methylation
- Oligonucleotide Array Sequence Analysis