Extended Data Fig. 2: Chromosomal instability in NSCLC BMs.

a-b, Enrichment of CNVs per genomic location profiled from each individual PT and BM sample, with an upper consensus plot which totals all the CNVs observed at a given genomic location. The color strip at the top of the plot represents the plurality consensus at each genomic location (red = amp, grey = loh, blue = del, orange = bamp, skyblue = bdel) across the chromosomal landscape (columns) for all samples (rows) from a, primary tumors and b, brain metastases. c, Kaplan Meier survival curve of lung adenocarcinoma patient survival, stratified by CIN^high (upper quartile, red line) and CIN^low (lower quartile, blue line) status as estimated by measurement of fraction of genome altered (FGA) from whole-exome sequencing data in the cancer genome atlas (TCGA) lung adenocarcinoma cohort. d, Pearson’s correlation of Caris’ panel DNA sequence of ~700 genes with TCGA WES data based on FGA (R = 0.99, p = 0). One-sided Wilcoxon test of significance performed., e-f, CIN70 signature²⁵ expression (z-score) (e) and STING signature expression (z-score) (f) in LUAD RNAseq data from Caris Life Sciences across disease site (PTs = 5867, BMs = 617, ECMs = 2612), g-h, CIN70 signature²⁵ expression (z-score) (g) and STING signature expression (z-score) (h) in LUSC RNAseq data from Caris Life Sciences across disease site (PTs = 2641, BMs = 91, ECMs = 747). Upper and lower edges of boxplots in e-h indicate 75th and 25th percentiles, respectively, and middle line indicates median. Tails extend to the 95% confidence interval. Statistical test and significance level as indicated on top of each boxplot.