Fig. 6: Enforcing nuclear FoxO1 shuttling impairs the transition from the naïve to the formative GRN.
From: FoxO transcription factors actuate the formative pluripotency specific gene expression programme
a Venn diagrams showing the overlap between FoxO1 targets (purple) and genes differentially expressed upon MK-2206 treatment in 2i (top) or at N24 (bottom) (DEGs, p value ≤ 0.05, grey). p values derived from hypergeometric tests of the overlaps are indicated. b Bootstrapping analysis (30,000 draws) of gene-sets of the same size as the sample gene sets (2i-specific, 200 genes; N24-specific, 731 genes; 2i&N24, 420 genes). The distribution of average log2FC is plotted. Empirical p values for the observed log2FC changes in FoxO1 target gene groups are shown. c Box plot showing the expression of core formative genes (n = 12) in WT cells after MK-2206 treatment in 2i, divided into FoxO1 N24 targets (blue) and non-targets (grey). Data are shown as log2FC relative to NT cells. p value from two-tailed Wilcoxon rank sum test is indicated. d Box plot showing the expression of core formative genes (n = 12) in WT cells after MK-2206 treatment at N24, divided into FoxO1 N24 targets (blue) or non-targets (grey). Data are shown as log2FC relative to NT cells. p value from two-tailed Wilcoxon rank sum test is indicated. e Box plot showing the expression of formative genes (n = 814) in WT cells treated with MK-2206 in 2i, divided into FoxO1 N24 targets (blue) or non-targets (grey). Data are shown as log2FC relative to NT cells. p value from two-tailed Wilcoxon rank sum test is shown. f Box plot showing the expression of naïve genes (n = 411) in WT cells treated with MK-2206 in 2i, divided into FoxO1 N24 targets (blue) or non-targets (grey). Data are shown as log2FC relative to NT cells. p value from two-tailed Wilcoxon rank sum test is indicated.
