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. Author manuscript; available in PMC: 2018 Oct 19.
Published in final edited form as: Cell. 2017 Oct 5;171(3):540–556.e25. doi: 10.1016/j.cell.2017.09.007

Figure 2. mRNA expression subtypes.

Figure 2

Top, L to R: 5 mRNA expression subtypes: luminal-papillary, luminal-infiltrated, luminal, basal-squamous and neuronal. Covariates: 4 previously reported TCGA subtypes; selected clinical covariates and key genetic alterations; normalized expression for miRNAs and proteins; log2 (fold change against the median expression across samples) for selected genes, for labeled gene sets. Samples within the three luminal subtypes, the basal-squamous subtype, and the neuronal subtype are ordered by luminal, basal, and neuroendocrine signature scores, respectively. Genes that are down-regulated* vs. up-regulated** in CIS.