Fig. 4Figure 4
A: Histogram of the most abundant proteins measured in microglia ApoE lipoproteins. Abundance was determined by excluding common contaminants, showing differential expression compared to proteins measured in ApoE −/− microglia-conditioned media, and the protein abundance being greater than the total mean + 0.5 standard deviation threshold. Error bars represent mean ± SEM. For proteomics analysis, the following groups were analyzed: ApoE2 microglia (n = 3), ApoE3 microglia (n = 3), and ApoE4 microglia (n = 4). B: PCA of the proteome of microglia ApoE lipoproteins. Circles are colored based on the ApoE isoform and represent the 95% confidence interval. Microglia samples show clear differences in the proteome of microglia-secreted ApoE lipoproteins based on the ApoE isoform. This finding is in contrast to the proteome of astrocyte ApoE lipoproteins, suggesting that the ApoE isoform plays a greater role in the proteome of microglia ApoE lipoproteins. C: Volcano plot showing differential p