Fig. 3

High throughput sequencing and bioinformatics analysis of HTR8 cells with different interventions. a Boxplot showing the gene expression of HTR8 cells. Four samples of the HTR8 cells were exposed to SiNP at 100 µg/mL for 24 hours, and the other four samples were exposed to SiNP-free cell medium and were used as controls. Ctrl, control group; SiNPs, SiNP exposure group. b Density plot showing the gene expression of each sample. c Pearson correlation analysis between HTR8 cells with different interventions. The coefficients between different samples in the same group (red) were much higher than that in different groups (blue). d Principal component analysis of HTR8 cells with different interventions. All samples were clustered into two groups in accordance with their actual treatments. e Volcano plot showing the expression of genes in the HTR8 cells. Green, downregulation; red, upregulation; black, not significant. f Heatmap showing the dysregulated genes in SiNP-exposed HTR8 cells. The clustering analysis was conduced among different samples or dysregulated genes. Blue, downregulation; red, upregulation. g Topological network of the functional annotation and enrichment analysis based on the dysregulated genes. Different functional modules were labeled with different colors