MGMT and hepatocellular carcinoma: We also identified a hypermethylated DMR within intron 3 of MGMT, containing the CpG site cg07554771 (CLD log2FC = 2.89, q = 0.02, HCC log2FC = 3.25, q = 0.0002; Fig. 3B, top), hypermethylation of which is correlated with MGMT repression in NAFLD and HCC [11].