Fig. 3
From: Integrative single-cell RNA-seq analysis of vascularized cerebral organoids
Transcriptomic fidelities in the fetal brain and bulk alteration transcriptomic by vascularization. A Similarity of transcriptome profiles in the fetal brain. Higher correlation values indicate higher similarity. Blank cells indicate the absence of cells [Refer to “ Methods” section for the calculation of the correlation values]. B Venn diagrams of genes altered by vascularization. Numbers indicate the number of genes changed. Left panel: Venn diagram of upregulated genes, right panel: Venn diagram of downregulated genes. Genes pointing to the center represent examples of genes commonly altered by vascularization in all vascularization protocols. C Significantly altered gene ontology (GO) terms (p-value < 0.05) predicted by gene set enrichment analysis (GSEA) of genes significantly altered by vascularization (corrected p-value < 0.01). The color of the nodes represents the enrichment score (the amount of change calculated by GSEA). The edge width between the nodes represents the similarity of gene set pairs. D Volcano plot of genes with altered expression induced by vascularization. The average log2 fold-change (FC) is shown on the x-axis and the − log10 (corrected p-value) is on the y-axis. The color of the gene names corresponds to the color of the GO terms in C