SWAN: Subset-quantile Within Array Normalization for Illumina Infinium HumanMethylation450 BeadChips

Overview

Journal Genome Biol

Specialties Biology
Genetics

Date 2012 Jun 19

PMID 22703947

Citations 497

Authors

Jovana Maksimovic

Lavinia Gordon

Alicia Oshlack

Affiliations

Soon will be listed here.

Abstract

DNA methylation is the most widely studied epigenetic mark and is known to be essential to normal development and frequently disrupted in disease. The Illumina HumanMethylation450 BeadChip assays the methylation status of CpGs at 485,577 sites across the genome. Here we present Subset-quantile Within Array Normalization (SWAN), a new method that substantially improves the results from this platform by reducing technical variation within and between arrays. SWAN is available in the minfi Bioconductor package.

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