Extended Data Fig. 5: MGMT expression in GBM single cells influences recurrence trajectories.

a, Surgical interval for the patients included in this analysis stratified by the MGMT promoter methylation status. X axis reflects the time from 1st to 2nd resection. Statistical significance of survival difference between the groups in each panel was computed using the log-rank test. b, Surgical interval analysis for the IDH-wildtype patients in the GLASS cohort stratified by the MGMT promoter methylation status. X axis reflects the time from 1st to 2nd resection. Statistical significance of survival difference between the groups in each panel was computed using the log-rank test. c, Logistic regression model using the average of MGMT gene expression in primary samples to infer the MGMT methylation status in the ref. ¹⁴ dataset. d, Proportion (%) of each cell type across the two time points (primary and recurrence) stratified by MGMT expression level. For d–g, box plots represent the median value as a solid horizontal line, lower and upper edges correspond to the first and third quartiles (the 25th and 75th percentiles), and the whiskers represent plus and minus 1.5× the interquartile range. Individual sample values are shown as jittered points. e, Proportion (%) of each malignant cell state across the two time points (primary and recurrence) stratified by MGMT expression level. f, Difference within patients in proportion (% in R − % in P) of each cell type across MGMT expression levels. g, Difference within patients in BP scores (score in R − score in P) across MGMT expression levels. h, Differentially expressed genes between MGMT-low and high groups across the recurrence trajectories (Methods). Each dot represents a gene, and dots are colored according to the group of DE genes to which they belong. i, CONS-UP and CONS-DN signatures plotted for patients included in the analysis. Value represents the T2–T1 difference (log₂(FC) of gene expression) for each patient. Patients are ordered according to the difference between signature scores. Genes are ordered according to their correlation (across patients) with the difference between signature scores.