Determination of threshold p-value and comparison of recurrence-related features among the three HCC datasets. Starting with gene of the lowest univariate Cox p-value, permutation-based pathway analysis was applied by gradually increasing the p-value. The maximum average number of pathways below p-value of 0.01 in the test set was measured at threshold p-values of 0.11, 0.07 and 0.12 from (A) HBV-HCC, (B) public HBV-HCC and (C) public HCV-HCC, respectively, as indicated with arrows. (D) Overlap of recurrence-associated pathways obtained at threshold p-values among datasets. (E) Overlap of recurrence-associated genes at threshold p-values among datasets. (F) Distribution of genes below the threshold p-value from each dataset in 16 common significant pathways.