Extended Data Fig. 10: Expression of APOBEC3 enzymes in clinical samples upon targeted therapy treatment.
From: The role of APOBEC3B in lung tumor evolution and targeted cancer therapy resistance
a, Comparison of APOBEC3B (A3B) expression levels (Exp: batch corrected TPM) measured using RNA-Seq analysis in human NSCLC specimens driven by EGFR and ALK driver mutations obtained before treatment (Pre-TKI, 32 samples), or post-treatment (Post-TKI, 42 samples) (all data points shown, two-sided t-test, *P = 0.011). b, Comparison of APOBEC3 (A3) family member expression levels (Exp: batch corrected Log (TPM + 1) measured using RNA-seq analysis in human NSCLC specimens obtained at treatment naïve (TN), residual disease (RD) or progressive disease (PD) with TKI (all data points shown, 762, 553, and 988 cells per group respectively, two-sided Wilcoxon test with Holm correction, *P = 0.02). c, Boxplot of normalized A3 family member expression measured using scRNA-seq obtained from the same samples as b (all data points shown, 762, 553, and 988 cells per group respectively, two-sided Wilcoxon test with Holm correction, *P < 0.05, **P < 0.01, ****P < 0.001, d=effect size calculated using a Cohen test). Boxplots: middle line=median, lower and upper hinges=first and third quartiles, lower and upper whiskers=smallest and largest values within 1.5×inter-quartile range from hinges.
