Figure 2. Genomic Landscape.

(A) Potential driver events. Mixed type, combined type, and separate type span from left to right, followed by RIKEN cases. The top graph shows mutation numbers followed by gender and hepatitis infection. For patients with two or more samples, gender and hepatitis information are shown only once at the first sample and left blank for other samples. The histology of each component from these cases is denoted below the track of hepatitis. For every two columns of LCM-treated combined type cases, the HCC component is displayed on the left with the ICC component on the right. Six separate type cases are ordered by case number from left to right (from Sep_01 to Sep_06). The middle graph details mutations of potential driver genes. Mutation types are indicated. Mutational frequency is shown on the left. Comparison of the mutational frequency of each gene between combined and mixed type is shown by the bar chart on the right. ***p < 0.001, Fisher’ exact test. The bottom graph shows genes targeted by focal CNAs: dark red for amplifications, light red for gains, dark blue for deletions, and light blue for losses. Altered frequency of each gene is shown on the left with the bar chart shown on the right.

(B) Summary of the mutations identified in cHCC-ICC by WGS.

(C) Circos plot for HBV integration events in cHCC-ICC. Two recurrent HBV-integrated genes, KMT2B and TERT, are highlighted.

(D) De novo mutational signatures identified in cHCC-ICC.

See also Figures S2 and S3 and Table S2.