Fig. 1: Multi-omics landscape of skull-base chordoma (SBC).

A Schematic overview of the number of tumors profiled and various data types data acquired for this cohort. B Genetic profile of genes that were mutated in at least 4% of the cases (upper) or known chordoma-related genes. C Comparisons of tumor mutational burden (TMB) between SBC cohort and other cancer cohorts included in The Cancer Genome Atlas (TCGA). D Significant GISTIC arm-level copy number alterations (CNAs) in primary SBC tumors (q < 0.1). E The percentage of arm-level CNA gain and loss events in primary SBC tumors. F Distribution of chromosome instability (CIN) status and GISTIC CNAs in SBC tumors. Samples are ordered by CIN score. G Survival Kaplan–Meier curves of primary SBC patients with CIN-high (CIN + , n = 43) or CIN-low (CIN-, n = 61) status (p-value from log rank test). Left panel, overall survival (OS); right panel, progression-free survival (PFS). H CIN score among primary tumors, recurrent tumors without radiotherapy and recurrent tumors after radiotherapy in SBC (Wilcoxon rank-sum test, p = 0.0024, p = 0.0004). Primary tumor, n = 107; recurrent tumor without radiotherapy, n = 36; recurrent tumor after radiotherapy, n = 23. The middle bar represents the median, and the box represents the interquartile range; bars extend to 1.5 × the interquartile range. Source data are provided with this paper.