Fig. 5
ATN conditions increase microglial transformation towards DAMs and result in a global upregulation of Apoe. a UMAP plots of the merged dataset of the F−/T−, F+/T− whole brains and contra-and ipsilateral tau-seeded F+/T+ hemispheres as shown in Fig. 4b, where each UMAP plot highlights the cells from each condition separately. Clusters are colored according to the cluster colors shown in Fig. 4b. Only cells belonging to one of the 4 conditions are colored per panel, cells belonging to other conditions are depicted in grey. b Pie charts representing the percentages of the 5 distinct microglia subsets as identified in Fig. 4b, within total microglia, per condition. c Volcano plot showing genes that are DE in homeostatic microglia between F+/T− and tau-seeded F+/T+ conditions. d Volcano plot showing genes that are DE in reactive microglia between F+/T− and tau-seeded F+/T+ conditions. e Volcano plot showing genes that are DE in DAM between F+/T− and tau-seeded F+/T+ conditions. DE threshold: − log10 (adjusted p) > 1.5, log2(FC) > 0.5; p value adjustment was performed using Bonferroni correction (c–e). f Violin plots showing the normalized gene expression of Apoe per cell in each of the 4 conditions for homeostatic microglia, reactive microglia and DAM. g Violin plots showing the normalized gene expression of C1qb per cell in each of the 4 conditions for homeostatic microglia, reactive microglia and DAM