These cells classified very close to wild-type microglia based on the expression of known markers (e.g. Cst3, Hexb), but displayed significant differences in gene expression of typical microglia homoeostatic genes (e.g. P2ry12/P2ry13, Cx3cr1, Tmem1), known AD risk factors (e.g. ApoE, Lpl, CD9, Ctsd, Tyrobp, Trem2), and other genes involved in lipid metabolism and phagocytosis (e.g. Lpl, Cst7). This evidence concerns the gene APOE and Alzheimer disease.