Fig. 6

Analysis of SNP variants inferred from GTEx, BGI, and Mount Sinai dataset. a The number of potential pathogenic SNPs was compared among GTEx normal liver, non-neoplastic liver, and tumor tissues in Mount Sinai, BGI, TCGA, ICGC, and Chiu et al. [16] datasets. *TCGA indicates the set of seven TCGA samples with HBV integration identified. b The number of potential pathogenic SNPs shows a significant association with liver fibrosis in non-neoplastic liver tissues in the Mount Sinai dataset. c The number of potential pathogenic somatic mutations is significantly associated with tumor recurrence while it is not significantly associated with liver fibrosis. The difference between the two groups was tested by Wilcoxon rank sum test P value. Significant P values (P < 0.05) are colored in red. d Genes with potential pathogenic mutations preferentially occurred in tumor recurrence groups are shown in low and high liver fibrosis groups. Mutated genes are marked in blue. The false discovery rate was assessed by permutation tests. Mutational status of those genes was also analyzed in TCGA samples with and without cirrhosis