While APP-PS1 Clec7a– microglia, which are not associated with Aβ-plaques [52], did not differentially regulate these genes, clusters 2 and 9 were broadly upregulated and clusters 1, 8 and 22 were broadly downregulated by microglia in the other neurological disease states analyzed, including APP-PS1 Clec7a+, hMAPT-301S, EAE CD11c–, EAE CD11c+ and LPS microglia. Here, APP is linked to nervous system disorder.