Fig. 3: Benchmarking of cells in vitro to human fetal pancreas. | Nature Communications

Fig. 3: Benchmarking of cells in vitro to human fetal pancreas.

From: A 3D system to model human pancreas development and its reference single-cell transcriptome atlas identify signaling pathways required for progenitor expansion

Fig. 3: Benchmarking of cells in vitro to human fetal pancreas.

a In addition to fetal pancreas samples, we sequenced fetal spheres which are fetal pancreas cells cultured in expansion conditions; 2D pancreatic progenitors which are hPSCs differentiated with one of two protocols; and PP-spheroids which are hPSC differentiated in vitro and cultured in 3D in expansion conditions (HUES4, H1, SBAD3.4). b UMAP plots of the overall data after removing non-epithelial cells (mesenchymal, neuronal, and blood cells). In each plot the cells are highlighted according to their known origin. c Cells are colored according to their cluster identity, assigned by unsupervised clustering. d A heatmap of the top ten genes enriched in each cluster. e UMAP showing broad expression of the pancreatic progenitor genes PDX1 and SOX9. f Global average counts in progenitors 1 and progenitors 2 for selected pancreatic genes highlighting differences between the two populations. g Global average counts in PP-spheroids and 2D progenitors for selected genes associated with cell proliferation. See also Supplementary Fig. 3.

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