Figure 1.

Synovial sarcoma subtypes and functional annotations a,b) The study workflow, including a) discovery and b) validation cohorts. c) UMAP plot of SS subtypes and metastatic status distributions. d) Kaplan‐Meier curve of clusters of metastasis‐free survival in discovery cohort at top 14% mRNAs variance (Log‐rank test, P = 0.013). e) Kaplan‐Meier curve of clusters of metastasis‐free survival in patients at top 14% gene variance applied at GSE40021 validation cohort (Log‐rank test, P = 0.01). f) Distributions of the ssGSEA score of upregulated genes in the oncogenic program across three SS subtypes. Middle line: median; box edges: 25th and 75th percentiles. Mann‐Whitney U test. g) Heatmap of the three SS subtypes. Clinicopathological characteristics (top) of the 55 synovial sarcoma patients are shown in the annotation, and different colors represent the characteristics and subtypes. Molecular data (bottom) from 55 patients profiled with mRNA and copy number variations are depicted. The statistical differences in categorical variables with three subtypes were compared using Fisher's exact test; Continuous variables were compared using the Kruskal‐Wallis test. *p < 0.05, **p < 0.01, ***p < 0.001. h) Association of five gene modules with 50 Hallmarks on ssGSEA scores. Spearman rank correlation. The shade of the color represents the levels of correlations, the size of circles represents the p‐value.