Extended Data Fig. 7: A co-regulated IFN-response program in the injured retina.
a, Distribution of expression of genes differentially expressed in microgliaIFN by microglia repopulating the brain after depletion (Repop) compared to microglia from control brain55 (Mann-Whitney U test, two sided). b, Distribution of Ifit3 expression across time in MG (top) and astrocytes (bottom) across subsets. c, Distribution of a signature score of Cluster 8 (‘ISG‘)astrocytes from LPS-induced neuroinflammation33 in the LPS-induced astrocytes as classified to the ONC astrocyte subsets (left) and across the ONC astrocyte subsets (right) (Student’s t-test, one sided). d, Off-diagonal panels: Comparison of overall expression scores (y and x axes) for each cell component of MCP1 (rows and columns, labels on diagonal) across the samples; lines correspond to linear fit. Pearson correlation (r) and significance (***p < 0.001; Pearson correlation t-test, one-sided) are shown in the panels above the diagonal. Diagonal panels: Distribution of overall expression scores for each cell type component, with kernel density estimates91. e, Distribution of MCP1 expression scores by astrocytes (n = 18,956 cells), microglia (n = 20,000 cells) and MG (n = 19,998 cells) across 0, 0.5, 1, 2, 4, 7 and 14dpc. Numbers above violins indicate median expression scores. Boxplots in b, e denote medians and IQRs; whiskers are the lowest datum still within 1.5 IQR of the lower quartile and the highest datum still within 1.5 IQR of the upper quartile.
