Hi Rich, The methods unfortunately wouldn't be suitable for Infinium arrays. The tools in this paper were developed using data from Roche (Nimblegen) microarrays and the McrBC restriction enzyme. Since the Illumina Infinium array is based on a completely different assay involving Bisulfite conversion, the methods wouldn't be applicable. Best, Martin. Martin Aryee Instructor Dept. of Oncology/Biostatistics Johns Hopkins University School of Medicine aryee at jhu.edu http://www.biostat.jhsph.edu/~maryee/ > From: Richard Friedman <friedman at="" cancercenter.columbia.edu=""> > Date: January 23, 2011 3:42:24 PM EST > To: bioconductor at r-project.org > Subject: [BioC] Application of Method of Aryee et al to Illumina methylation Arrays > > > Dear List, > > Is it possible to apply the method described in > > Aryee MJ, Wu Z, Ladd-Acosta C, Herb B, Feinberg AP, Yegnasubramanian S, > Irizarry RA. Accurate genome-scale percentage DNA methylation estimates from microarray data. Biostatistics. 2010 Sep 27. [Epub ahead of print] PubMed PMID: 20858772. > > to Illumina Infinium methylation arrays? > > Thanks and best wishes, > Rich