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. Author manuscript; available in PMC: 2020 Jan 1.
Published in final edited form as: J Autoimmun. 2018 Aug 30;96:59–73. doi: 10.1016/j.jaut.2018.08.005

Figure 5. LCN2 deficiency restores expression of genes that regulate cognition and learning.

Figure 5.

FACS-purified microglia from 7-10-month old mice were used for RNA sequencing. (A) Principal component analysis (PCA) shows clustering of samples by genotype. (B) Heatmap of K-means (K=6) clustering on 1467 differential genes determined by ANOVA (p<0.05) and corresponding GO processes from each cluster. GO analysis revealed increased expression of genes involved in cognition and signal transduction in Sle1,3 microglia that was restored in Sle1,3-LCN2KO microglia (cluster 5). (C-D) Volcano plot of differentially expressed genes with an adjusted p<0.1 (or a false discovery rate of 10%, as determined by DESeq2 Benjamin & Hochberg correction) between BL/6 and Sle1,3 microglia (C) and Sle1,3 and Sle1,3-LCN2KO microglia (D) are shown in red. A complete list of differentially expressed genes is provided in Supplementary Table 4. Genes of particular interest are specified in the Figure. B6: n=4; Sle1,3: n=4; Sle1,3-LCN2KO: n=4; and LCN2KO: n=4.