Fig. 5

Transcriptome analysis revealed common gene expression signatures in U87 MG cells upon knocking down ARPC4 and NDUFV1. A Principal Component Analysis (PCA) on the expression profiles of CRISPRi-U87 cells expressing indicated sgRNA after 12-hour co-culture with B7-H3 CAR T cells. Each data point corresponds to an independent biological replicate, with colors denoting distinct gene knockdown groups. B&C Volcano plots showing differentially expressed genes following the knockdown of ARPC4 (B) and NDUFV1 (C) in CRISPRi-U87 cells. D Venn diagram illustrating the overlap of upregulated genes between the knockdown of ARPC4 and NDUFV1 in CRISPRi-U87 cells. E&F KEGG pathway enrichment analysis on upregulated genes in ARPC4 knockdown cells. G&H KEGG pathway enrichment analysis on upregulated genes in NDUFV1 knockdown cells