Fig. 2

Proapoptotic tumors are enriched in DNA-repair and immune-inflammatory signaling pathways and predict chemotherapeutic benefits. (A) Gene set enrichment analysis (GSEA) was performed in the TCGA cohort using a panel of functional gene sets related to Gene Ontology (GO) biological processes and hallmark items from the Molecular Signatures Database (MSigDB) of the Broad Institute. The heatmap shows the normalized enrichment score (NES) for each gene set. (B) The violin plot displays total mutation load and single nucleotide variant (SNV) mutation load among apoptotic phenotypes in the TCGA cohort. The values were log2 transformed. (C) The violin plot presents the IC50 of oxaliplatin (OXA) and docetaxel assessed for each sample in the GSE26942 cohort using the OncoPredict algorithm. (D) Kaplan–Meier survival analysis for patients with and without adjuvant chemotherapy (ACT) treatment among different apoptotic phenotypes in the GSE26942 cohort. (E) Adjusted hazard ratio for patients who received ACT among different apoptotic phenotypes using Cox regression model compared with patients who did not receive ACT.