Fig. 7

NMF cluster discovery for the LAURA classification. The non-negative matrix factorization (NMF) approach identifies four metagenes (signatures) summarized in the expression profile matrix. Each column corresponds to a sample, scaled to the sum of one of the signatures identified by the NMF, and ordered by clusters. The 4 clusters are annotated with respect to IHC class, IHC, and PAM50 subtypes and by the color map of their associated metagenes. For each cluster, specific features are reported, in the form of boxplots, OncoPrint, lollipop plot, H&Es, and FISH images. The ontological derived terms describing the main features of each group are reported on the right-hand side leading to the LAURA acronym for the classification: LA, lymphocyte activated; U, unique HER2-gain; R tumor-stroma remodeling; A, actionable PIK3CA