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Qianxing Mo et al. identify basal and luminal integrative subtypes of muscle-invasive bladder cancer (MIBC) using multi-omics data from The Cancer Genome Atlas. Using a gene panel for classification of MIBC derived from gene expression data, they find that the basal subtype is associated with worse survival in patients receiving no neoadjuvant chemotherapy (NAC), but better survival in patients receiving cisplatin-based NAC and further identify genes associated with response to PD-L1 blockade immunotherapy, suggesting potential clinical use of these genes’ expression signature.