Fig. 1

Transcriptional profiles of lineage markers as determined by single-cell RNA sequencing of individual TBI macrophages. a Mouse leukocytes were harvested from pooled ipsilateral hemispheres of brain tissue 1 day post-TBI and cell sorted for macrophages by flow cytometry. Flow cytometry gates for cell sorting of live TBI macrophages (CD45^hi Ly6G⁻ CD11b⁺ F4/80⁺) are shown. TBI macrophages were sorted to high purity and processed for single-cell RNA sequencing. b Transcriptomes of 45 individual TBI brain macrophages were analyzed for cell lineage marker expression. Each diamond symbol in the stacked dot plot represents a single TBI macrophage. For each cell, gene expression of markers of neurons, astrocytes, microglia, monocytes, dendritic cells, NK cells, T and B cells, and neutrophils (N) is shown as transcripts per million (TPM). The percentage of TBI brain macrophages positively expressing a gene (TPM > 0.1) is reported above each column