DNA methylation—based CNA profiling of FFPE tissue samples
Methylation analysis was performed in cases where FFPE DNA was available. In brief, samples were analyzed at the microarray unit of the DKFZ Genomics and Proteomics Core Facility using the Illumina Infinium MethylationEPIC BeadChip array according to the manufacturer’s instructions. Copy-number variation analysis from the methylation array data was performed as described by Capper et al. 