Additional file 2 of A novel immune classification reveals distinct immune escape mechanism and genomic alterations: implications for immunotherapy in hepatocellular carcinoma

Additional file 2: Table S1. Basic information of datasets included in this study for identifying distinct TIME phenotypes. Table S2. The specific Hallmark pathways of each TIME phenotype in the GEO cohort. Table S3. The specific KEGG pathways of each TIME phenotype in the GEO cohort. Table S4. The specific Hallmark pathways of each TIME phenotype in the TCGA cohort. Table S5. The specific KEGG pathways of each TIME phenotype in the TCGA cohort. Table S6. The difference of chemokines, ILs, IFNs, and other important cytokines and their receptors among three TIME phenotypes in the expression, CNV and mutation level. Table S7. The significant focal copy number alterations (including amplification and deletion) of each TIME phenotype. Table S8. The epigenetically silenced genes (ESGs) in three TIME phenotypes. Table S9. Ninety-eight phenotype-related differentially expressed genes (DEGs). Table S10. GO enrichment analysis of 98 phenotype-related DEGs. Table S11. KEGG enrichment analysis of 98 phenotype-related DEGs. Table S12. Multivariate COX regression analysis of TI in HCC and pancancer.