In contrast to the mouse gene network expressed by amyloid-responsive microglia, the innate immune network expressed by microglia responding to tau pathology in mice transgenic for tau (P301L), was not significantly enriched for human genes associated with Alzheimer’s disease using the same methods (P = 0.78), although Apoe is part of this module and this module also contained genes largely expressed by microglia (Supplementary Fig. 2, top 137 genes from a total of 2299 genes in the module based on the topological overlap measure). Here, MAPT is linked to Alzheimer disease.