Fig. 5: Microglia adopt diverse, the time-dependent transcriptional phenotype in response to SCI.
From: Microglia coordinate cellular interactions during spinal cord repair in mice
a Microglia were computationally isolated for analysis between experimental conditions. b, c Microglia is subdivided into 11 subsets based on dominant gene expression. d–f UMAP plots showing the microglia subsets split by time post-SCI. Numbers in pie charts show major subsets as a percent of total microglia in each group. g–m Violin plots showing gene-level changes within individual microglia. Wilcox rank-sum tests, ****p < 0.0001. n, o Volcano plots showing increased genes (orange) and decreased genes (blue) in microglia following SCI at 7 dpi (n) or 28 dpi (o). n–o Wilcox rank-sum tests. Selected genes are labeled. p Most of the microglia genes decreased at 7 dpi remained decreased at 28 dpi; WebGestalt gene ontology and pathway analysis showed these genes control immune regulation and myeloid cell differentiation. q Less than half of the microglia genes increased at 7 dpi were also increased at 28 dpi; WebGestalt gene ontology and pathway analysis showed consistently increased genes control cell metabolism, translation, and response to heme, oxidants, and phagocytosis. Genes exclusively increased in microglia at 7 dpi control aspects of chemotaxis and cell metabolism. Data for each condition were pooled from n = 3-4 mice. Source data are provided as a Source Data file. See also Sup. Fig. 8.
