Fig. 7

Microglia heterogeneity. a, b Dot plot a and feature plots b showing microglial cluster separation by different markers. (Scale bars show LogNormalized counts). c–e Microglia vary with CNS region using Milo [15]. f Immuno-fluorescence validates that a subset of IBA1-positive microglia expresses the Microglia_2 cluster marker GPNMB (full arrow marks positive cell, arrow head marks negative cell). Pairwise differential gene expression analysis across all microglia clusters shows considerable variation in gene expression between g CSC vs. BA4, h CB vs. BA4 and i CSC vs. CB, j old and young and k male and female donors. (Gonosomal genes excluded, but shown in Additional file 1: Fig. S11). Red arrows indicate genes discussed further in the main text