For instance, CHCHD2, a mitochondrial gene involved in promoting cellular migration37 and implicated in Parkinson’s disease (PD)38,39, was significantly downregulated in APOE4 microglia when compared to both APOE3 (logFC = –7.8, p = 1.3e−11; Figs. 2b, 3c, Supplementary Data 2) and APOE2 (logFC = –7.4, p = 7.8e−11; Figs. 2c, 3c, Supplementary Data 2). The gene discussed is APOE; the disease is Parkinson disease.