Extended Data Fig. 5: Patterns of cell phenotype and cell-cell interaction enrichment among breast cancer molecular subtypes. | Nature Cancer

Extended Data Fig. 5: Patterns of cell phenotype and cell-cell interaction enrichment among breast cancer molecular subtypes.

From: Imaging mass cytometry and multiplatform genomics define the phenogenomic landscape of breast cancer

Extended Data Fig. 5

a, Patterns of enrichment among metaclusters defined by combining subsets of Phenograph-assigned cell types by descriptive label (for example, fibroblasts, myofibroblasts, T cells). tSNE map on the right indicates position by cell identity (median values for 22 metaclusters computed based on n = 479, 844 cells). Coloured markers indicate significant enrichment. Depicted associations derived from linear regression (n= 390 tumours; two-sided tests; adjusted for multiple comparisons), restricted to those with an adjusted p-value < 0.05, were identified by linear models where the dark grey background is proportional to the derived point estimate, providing an indication of the relative strength of the association. b, Co-occurrence plots of cell-cell interactions identified by permutation testing and found to be significantly enriched (p-value < 0.05 after adjustment for multiple comparisons) among the molecular subtypes indicated (limited to samples that contain both cells for a given interaction; range of n between 86 and 361 tumours for depicted associations). Rows and columns correspond to cell types in the same order as labelled on the y-axis.

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