Extended Data Fig. 5: Comparison of gene mRNA expression at disease progression to baseline.

a, Volcano plot showing the expression changes of individual genes after treatment compared to baseline. Genes that are differentially expressed (absolute Log₂FC greater than 1 and P-value using two-sided Welch’s t-test less than 0.05) are colored red and labelled. Blue dots indicate genes with absolute Log₂FC greater than 1. Green dots indicate genes with P value < 0.05. b, Barplot showing results of functional enrichment analysis of differentially expressed genes in (a). P-values generated using two-sided limma t-test. c, Forest plot summarizing differences in gene expression profiles and signatures for 9 patients who did not have objective response to treatment (shown in black) with expression data at both disease progression and baseline. Dot denotes average and bars represent 95%CI. Blue dot denotes one additional patient with objective partial response to treatment. FC denotes fold change.