Figure 4
Transcriptomic profile after 24-h DE differentiation suggests inefficient activation of WNT signalling in VUB04. (A) Principal Component Analysis of dimension 1 versus dimension 2 based on normalized transcriptome data. (B) Volcano plot based on comparison of gene expression levels between VUB04 and the control group (VUB01 and VUB02). Genes with |log2 fold change|> 1 and FDR < 0.05 were marked as either significantly upregulated (red) or downregulated (blue). (C) Transcription factor enrichment for the top deregulated genes (|log2 fold change| and FDR < 0.05) in VUB04 done by Enrichr tool. (D) Heatmap for gene expression levels (normalized counts per million) of pluripotency genes, WNT and NODAL signalling downstream targets, DE and epithelial-to-mesenchymal transition markers in the control group and in VUB04 after 24-h DE differentiation. (E) Prediction for upstream regulators of differentially expressed genes in the 24-h DE VUB04 samples with |log2 fold change|> 1 and FDR < 0.05 done by Ingenuity Pathway Analysis. Only the upstream regulators with the activation z-score higher than 2 or lower than -2 and p-value < 0.05 are shown.
