Accessing Cancer Methylation Data

The Ontario methylation data have been deposited in dbGAP under accession number [phs000779.v1.p1]. These data were available to researchers under the following constraints: (1) the use of the data is limited to research on cancer, (2) the researchers have local Institutional Review Board approval and (3) the researchers have the approval of either Colon Cancer Family Registries [54 ] or Mount Sinai Hospital (Toronto) Research Ethics Board. The TCGA data (KIRC and AML) are available through the TCGA Data Portal [55 ]. The WGBS EBV data is available through the Gene Expression Omnibus of the National Center for Biotechnology Information under the accession number [GEO:GSE49629]. Our method is available as the preprocessFunnorm function in the minfi package through the Bioconductor project [56 ]. The code in this package is licensed under the open-source license Artistic-2.0.