Extended Data Fig. 2: Correlation of MGnD response with tauopathy.

a, Bar graphs showing the proportions of each microglial cluster in male and female samples according to cognitive status and APOE genotype. b, Dot plot and bar graph showing the proportions and fold change of the homeostatic clusters MG1+MG2, the intermediate clusters MG6+MG8 and the MGnD clusters MG7+MG9+MG11, in female AD APOE ε3/3 and APOE ε3/4 samples. Representative images of p-tau staining (c) and quantification of tau score (d,e) in samples used for snRNA-seq analysis, including female control APOE ε3/3 (n = 5) and APOE ε3/4 (n = 6); female AD APOE ε3/3 (n = 5) and APOE ε3/4 (n = 3); male control APOE ε3/3 (n = 6) and APOE ε3/4 (n = 4); and male AD APOE ε3/3 (n = 5) and APOE ε3/4 (n = 5). Correlation of clusters MG7, MG8 and MG9 with tau score in male samples (f-h). Representative images of Aβ staining (i) and quantification of Aβ score (j,k) in samples used for snRNA-seq analysis, including female control APOE ε3/3 (n = 4) and APOE ε3/4 (n = 6); female AD APOE ε3/3 (n = 5) and APOE ε3/4 (n = 5/group); male control APOE ε3/3 (n = 5) and APOE ε3/4 (n = 4); and male AD APOE ε3/3 (n = 5) and APOE ε3/4 (n = 5). Correlation of clusters MG7, MG8 and MG9 with Aβ score in female samples (l-n). Correlation of clusters MG7, MG8 and MG9 with Aβ score in male samples (o-q). Data were analyzed by one-way ANOVA and are presented as mean ± s.e.m. Fisher’s LSD test for multiple comparisons (d,e,j,k). Two-sided Pearson correlation with BH corrections (d-h,l-q).