Analysis of the 12,023 probes with ≥3 CpG sites/probe.

*Analysis of the 12,023 genes with ≥3 CpG sites/probe. All samples were compared in a pairwise fashion. For all primary tissue compared to cell lines there were >2200 genes with a statistically significant methylation differences as determined by having a Benjamini-Hochberg adjusted p-value<0.05. When primary tumor was compared to normal tissue, 98 genes had a statistically significant difference in methylation. There were no statistically significant differences in methylation between tumors and tumor-derived xenografts.