Fig. 6: Gene expression and genetic profiling of Group A versus Group B RIG.

a GSEA results showing GO NES differences by category between Group A (blue) and Group B (red) RIG tumors; horizontal axis is NES for comparing RIG Group B vs. RIG Group A (NES > 0 means enrichment in Group B and NES < 0 means enrichment in Group A; FDR values for comparisons are listed in Supplementary Data 15); Box-plot midline shows median; hinges are at 25th and 75th percentiles; whiskers show minimum and maximum NES values for each geneset. b For RIG samples with germline and somatic genome sequencing and transcriptomic data, germline variant load was identical between subgroups, but the somatic load was approximately ninefold greater in Group B (P = 0.0037); the RIG sample with MSH2 mismatch repair defect was excluded from this analysis. c GSEA results for DNA-repair pathways for Group B versus Group A germline and tumor samples; negative numbers represent depletion in Group B versus Group A. d Differences in expression for pre-selected individual genes from the DNA-repair genesets that were judged to be most reflective of DNA-repair efficiency are shown by decreasing P value (top to bottom); colors represent the log₁₀ ratio of fold change in Group B versus Group A. NES normalized enrichment score, RIG radiation-induced high-grade glioma, GSEA geneset enrichment analysis, FDR false discovery rate. Significance testing in panels b and d was performed using Student’s two-sample t-test; tests were two-sided. Adjustments for multiple comparisons were not performed in part d because genes were chosen a priori. NES and FDR q values were calculated within the GSEA software (see “Methods” for parameters).