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. Author manuscript; available in PMC: 2023 Sep 5.
Published in final edited form as: Nat Genet. 2022 Dec 1;54(12):1853–1864. doi: 10.1038/s41588-022-01230-9

Extended Data Fig. 9: Categorical features of immune clusters.

Extended Data Fig. 9:

a, Proportion of patients with categorical features per cluster. Features are ordered by significance using Fisher’s exact test (two-sided) and the clusters are arranged by the proportion of long-term survivors. Features include homologous recombination (HR) status, homologous recombination deficiency (HRD) type, number of DNA repair pathway alterations, survival group (LTS, long-term survivor; MTS, moderate-term survivor; STS, short-term survivor), status at last follow-up (D, dead; P, progressed and alive; PF, progression-free and alive), self-reported smoking status, DeepCC molecular subtype (C1, mesenchymal; C2, immunoreactive; C4, differentiated; C5, proliferative), and neoadjuvant treatment (Y, yes; N, no). b, Proportion of patients affected by gene alterations per immune cluster. Genes are ordered by significance using Fisher’s exact test (two-sided) and clusters are ordered by the proportion of long-term survivors. The Fisher’s test P values displayed in (a) and (b) are Benjamini-Hochberg adjusted P values.