Extended Data Fig. 8: Up-regulation of ECM regulatory genes, including MMPs, in LHS cells, and landscape of collagen gene expression across iHBCA annotated cell states.
From: Anti-progestin therapy targets hallmarks of breast cancer risk
A) Dot plot of up-regulated ECM genes in LHS cells showing gene expression at baseline and post-treatment. Cell fraction represents the percentage of cells within the LHS population expressing each gene with mean expression overlaid. B) Boxplots of up-regulated MMPs in LHS cells showing gene expression across participant samples at baseline and post-treatment. Box plots centre lines represent median values, box bounds indicate the 25th and 75th percentiles, and whiskers extend to the most extreme datapoint within 1.5 × IQR (inter-quartile range) of the outer hinge of the boxplot. P-value and log fold change (post-treatment/baseline) determined using Memento are overlaid. Memento significance is calculated using a nonparametric permutation test where observed mean differences are compared to a null distribution generated by permuting treatment group labels. N = 6 tissue pairs. C) Dot plot of collagen genes across all iHBCA annotated cell states. Cell fraction represents the percentage of cells within each cell state expressing each gene with mean expression annotated by colour.
