Fig. 4: Inferred signalling pathway activity and upstream transcription factors associated with KPT-330-mediated differentiation. | Nature Biomedical Engineering

Fig. 4: Inferred signalling pathway activity and upstream transcription factors associated with KPT-330-mediated differentiation.

From: Screening for modulators of the cellular composition of gut epithelia via organoid models of intestinal stem cell differentiation

Fig. 4

a, Heat map of Cohen’s d effect sizes (greyed values <±0.2) comparing differential PROGENy pathway activities between KPT-330 and non-treated cells within each cell type. b, Organoid scRNA-seq UMAP based on upstream TF prediction (DoRothEA) of all samples labelled by TF clustering (clusters named 0-6). c, Scaled predicted upstream transcription factor activity heat map for top 10 markers by TF cluster (by log fold change vs all others). d,e, Stacked bar chart for DoRothEA cluster by cell type (d) and KPT-treatment (e). f, Odds ratio enrichment and depletion by cell type and over DoRothEA cluster based on Fisher exact testing, with 95% confidence interval plotted for each cell type relative to all others, dashed line at 1. FDR-adjusted Fisher exact testing: *P < 0.05, **P < 0.01, ***P < 0.001, ****P < 0.0001, individual P values reported in source data.

Source data

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