Fig. 2: Gene expression changes in the brain of TDP-43Q331K/Q331K Grn−/− mice.
From: Progranulin deficiency does not exacerbate TDP-43 pathology in TDP-43 transgenic mouse models
Total RNAs were extracted from the cortex of 10-month-old WT, TDP-43Q331K/Q331K (Q331K), Grn−/−, and TDP-43Q331K/Q331KGrn−/− (Q331K Grn−/−) male mice, and the RNA-seq was performed to analyze gene expression changes (n = 5–6 mice per genotype). A Differentially expressed genes (DEGs) with FDR ≤ 0.05 and absolute log2(FC) ≥ 0.5 between WT and Grn−/− are plotted using Heatmapper. B DEGs identified in the TDP-43Q331K/Q331KGrn−/− compared with WT (FDR ≤ 0.05, absolute log2(FC) ≥ 0.5). C Heatmap showing the expression of the DEGs identified in the TDP-43Q331K/Q331KGrn−/− compared with TDP-43Q331K/Q331K (FDR ≤ 0.05, absolute log2(FC) ≥ 0.5). D Heatmap showing the expression of the DEGs identified in the TDP-43Q331K/Q331KGrn−/− compared with Grn−/− (FDR ≤ 0.05, absolute log2(FC) ≥ 0.5). E Venn diagrams showing the overlap of the DEGs identified in the indicated comparisons. F Heatmap illustrating the expression of the significantly upregulated genes (log2FC ≥ 1) identified in the TDP-43Q331K/Q331KGrn−/− mice compared with WT. G Heatmap illustrating the expression of the significantly downregulated genes (log2FC ≤ −1) identified in the TDP-43Q331K/Q331KGrn−/− mice compared with WT. H Venn diagrams showing the overlap of the DEGs identified in this study and the previous study by White et al. DEGs (FDR ≤ 0.05) identified in the TDP-43Q331K/Q331KGrn−/− mouse cortical samples were compared to those identified in the 5- and 20-month-old TDP-43Q331K/Q331K mouse cortical samples from the study of White et al.
