Box and whisker plots to visualize changes within AD microglia across cortical layers showed trends towards an increase in MHC2 and CD68 levels in layers III to V; TSPO in layers II and V; TMEM119 in layer III and, to a lesser extent, IV, V, and VI; and FTL in layers II, III, V, and VI (see Fig. S4b, Additional file 2). Here, CD68 is linked to Alzheimer disease.