Fig. 6

Results of comparing cortex tissue from vehicle and LPS-treated mice at different resolution levels of cell types. a A tree encodes information of cell subpopulations at different resolutions. The cell numbers for each subpopulation are given for each leaf. The median expression of 13 canonical type markers, each columnwise scaled to [0,1], is shown in the left heatmap. The identified DS genes are shown in the right heatmap (each column is a gene, each row subpopulation; upregulated in the LPS group in orange, downregulated in blue). b Volcano plots (-log P value versus log fold change) with the 30 genes with highest absolute logFC colored in red. Number of down- and upregulated genes are labelled on the left and right side of the dashed line at logFC=0. c Heatmaps of top 30 genes (red points in b, ordered by decreasing logFC