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Fig. 4 | Molecular Neurodegeneration

Fig. 4

From: Prevention of C5aR1 signaling delays microglial inflammatory polarization, favors clearance pathways and suppresses cognitive loss

Fig. 4

Temporal gene expression profiles across four genotypes. (a) RNA-seq experiments were performed using duplicate samples from WT (blue), C5aR1KO (red), Arctic (green) and Arctic/C5aR1KO (orange) mice at 2, 5, 7 and 10–11 months. A total of 32 RNA-seq libraries were sequenced and analyzed. Reads were aligned to the reference genome with STAR. Gene expression level was estimated by RSEM and analyzed with maSigPro to identify distinct gene expression profiles across time. Differentially expressed genes during the time-course were loaded into Metascape and PaintOmics 3 to acquire gene ontology (GO) and KEGG pathways enrichment. (b, left) Heatmap of 2156 differentially expressed genes across four genotypes and four ages. Nine gene expression clusters were derived from maSigPro and labeled with number and color on the side. Quantile normalized TPM plus 0.1 were transformed between −1 and 1 to present high (red) and low (blue) expression level within each cluster. (b, right) Gene expression profiles for cluster 4 and 2. Median profile are plotted across all replicates for all the genes in the corresponding cluster. WT (blue), C5aR1KO (red), Arctic (green) and Arctic/C5aR1KO (orange). (c) Gene ontology enrichment was measured on genes from cluster 4 (green) and 2 (yellow). Gene ontology terms were sorted based on p-value. The percentage of genes in the cluster that are contained in the GO term is listed to the right of each bar

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