Fig. 5

Genotype effect on differentially expressed genes and pathway enrichment analysis in WT and IL-1R1 gKO CHI mice. Direct comparison between IL-1R1 gKO CHI vs WT CHI groups demonstrates IL-1R1 signaling pathway’s temporal specificity in regulating neuroinflammatory gene expression following CHI. NanoString analysis using a mouse Neuroinflammatory panel was used to assess the genotype effect on cortical transcriptional patterns comparing IL-1R1 gKO CHI to WT CHI mice at 3 h post-injury (IL-1R1 gKO CHI n = 5, WT CHI n = 6), 9 h post-injury (IL-1R1 gKO CHI n = 10, WT CHI n = 11), 24 h post-injury (IL-1R1 gKO CHI n = 7, WT CHI n = 6), and 72 h post-injury (IL-1R1 gKO CHI n = 7, WT CHI n = 6) in 4-month-old mice. A Volcano plots of differential gene expression between IL-1R1 gKO CHI vs WT CHI at 3 h, 9 h, 24 h, and 72 h post-injury. Data points above the reference line (grey) represent statistical significance (FDR < 0.05). Positive Mean Z-Score Difference (red dots) indicates higher gene expression in IL-1R1 gKO CHI relative to WT CHI. Negative Mean Z-Score Difference (blue dots) indicates lesser gene expression in IL-1R1 gKO CHI relative to WT CHI. Numbers in the top left corner of each graph indicate the total number of downregulated (blue) and upregulated (red) differentially expressed genes. B NanoString pathway analysis comparing the significant DEGs between IL-1R1 gKO CHI vs WT CHI groups. Asterisks (*) indicate that the total number of significant differentially expressed genes (both upregulated and downregulated) within that designated functional category (y-axis) are significant (p < 0.05) relative to chance