Fig. 4: Molecular characterization of pre-alpha cells and SC-alpha cells.

a Scatterplot showing relative expression of pre-alpha (x-axis) and SC-Alpha (y-axis) transcript counts. Both axes are log2(cpm). Genes with fold change greater than 0.5 or less than −0.5, and p value < 0.01 as calculated using a Wilcoxon rank sum test, are highlighted in red. b Heatmap showing pre-alpha and SC-Alpha cells in comparison with human alpha, beta, and delta cells. Top 46 genes are alpha cell specific, middle 31 genes are beta cell specific, and bottom 5 genes are delta cell specific. Coloring is based on z-score from 1.5 as high (yellow) to −1.5 as low (purple). c Venn diagrams comparing KEGG pathway (left) and Gene Ontology-Biological Process (right) database overlap between the highest expressing 150 genes in pre-alpha and SC-Alpha cells. Significant terms defined as p value < 0.01 as calculated using an EASE Score (modified Fisher Exact test). d Heatmaps showing selected pathways from KEGG and Gene Ontology-Biological Process terms for pre-alpha and SC-Alpha cells. Columns show number of genes mapped to the pathway divided by number of possible genes in the pathway, in addition to its percentage. Scale is from –log(p value) of 2 (light red) to 10 (green) for KEGG and –log(p value) of 2 (light red) to 7 (green) for GO-BP. All pathways that were not significant as calculated using an EASE Score (modified Fisher Exact test), i.e. –log(p value) from 0 to 2, are labeled in red. Full heatmaps are shown in Supplementary Figs. 14 and 15.