Fig. 3.

Notch2 gene regulation in BMSCs. a Schematic representation of the experimental model. b Flow cytometry and immunoblot analyses of Notch2 in Notch^fl/fl stromal cells following in vitro CRE recombination. c Principal component analyses of the transcriptomes from three Notch2-proficient (orange circles) and Notch2-deficient (light blue circles) BMSCs and from five Notch2 wild-type (red circles) or knockout (dark blue) BMSCs cultured with CLL cells for 5 days. d GSEA comparing the expression of genes associated with the presence or absence of Notch2 expression in BMSCs co-cultured with primary CLL cells. Gene sets are listed in order of Normalised Enrichment Scores (left black Y-axis). FDR q values for each gene set are indicated by the red dotted line (right red Y-axis). e Pie-chart of Notch2-induced (left) and Notch2-repressed genes (right). f Heat map showing the 200 most significantly up- and down-regulated genes in Notch2-deficient BMSCs in response to contact with CLL cells. Genes listed in red have known functions in regulating Wnt signalling