Fig. 7

KAISO silencing affects REST-regulated genes. A Venn diagrams showing genes: 1) significantly upregulated by siKAISO; 2) significantly downregulated by siKAISO; 3) significantly upregulated by siREST; 4) significantly downregulated by siREST in IDH-MUT glioma cells. B Venn diagrams showing genes: 1) significantly upregulated by siKAISO; 2) significantly downregulated by siKAISO; 3) significantly upregulated by siREST; 4) significantly downregulated by siREST in U87 IDH-WT glioma cells. (C) Effect of KAISO silencing on gene expression in IDH-MUT and IDH-WT U87 glioma cells. Chi2 analysis between differentially expressed genes categories is presented in Additional File 11. D Effect of REST silencing on gene expression in IDH-MUT and IDH-WT U87 glioma cell lines. Chi2 analysis between differentially expressed genes categories is presented in Additional File 11. E Venn diagram of genes: 1) significantly upregulated by siKAISO; 2) significantly downregulated by siKAISO; 3) significantly upregulated by siREST; 4) significantly downregulated by siREST in U87 IDH-MUT glioma cells within genes from REST-repressed category. F Venn diagrams showing genes: 1) significantly upregulated by siKAISO; 2) significantly downregulated by siKAISO; 3) significantly upregulated by siREST; 4) significantly downregulated by siREST in U87 IDH-MUT glioma cells within genes from REST-activated category. G Venn diagrams showing genes: 1) significantly upregulated by siKAISO; 2) significantly downregulated by siKAISO; 3) significantly upregulated by siREST; 4) significantly downregulated by siREST in U87 IDH-WT glioma cells within genes from REST-repressed category. H Venn diagrams showing genes: 1) significantly upregulated by siKAISO; 2) significantly downregulated by siKAISO; 3) significantly upregulated by siREST; 4) significantly downregulated by siREST in U87 IDH-WT glioma cells within genes from REST-activated category. I Scatter plot of REST-repressed genes with significantly changed expression upon KAISO silencing in IDH-MUT and IDH-WT glioma cell lines. Log2 fold change in gene expression between siKAISO and siCTRL is plotted for IDH-MUT (y-axis) and IDH-WT(x-axis). The genes that had significantly changed expression in both IDH-WT and IDH-MUT are shown in black, the genes specific to IDH-MUT are shown in red, and the genes specific to IDH-WT are shown in purple. J Scatter plot of REST-activated genes with significantly changed expression upon by KAISO silencing in IDH-MUT and IDH-WT glioma cell lines. Log2 fold change in gene expression between siKAISO and /siCTRL is plotted for IDH-MUT (y-axis) and IDH-WT (x-axis). The genes that had significantly changed expression in both IDH-WT and IDH-MUT are shown in black, the genes specific to IDH-MUT are shown in red, and the genes specific to IDH-WT are shown in purple. Genes assigned to ECM organization by Gene Ontology Biological Process analysis are framed in orange