Fig. 2

Number of differentially methylated REs in HCV/EtOH-HCC tissues, each compared to normal liver. Hypomethylated REs, in particular LINE-1, predominated among the identified dmREs (FDR < 0.001) across HCV-HCC and EtOH-HCC and both UFSH and TCGA data (a–d). In addition, we observed a greater number of dmREs in HCV-HCC compared to EtOH-HCC (a vs c), particularly in the TCGA data (b vs d). Note that the sample sizes between EtOH and HCV samples were equal in order to minimize statistical bias