Fig. 1

Workflow and quality control for single-cell isolation and sequencing of spinal cord immune cells. A Schematic of experimental approach. Spinal cords were harvested from mice, dissociated, and then stained for CD45 before being run on a FACSAria for sorting. Red and green cells identifying ‘hi’ and ‘lo’ expressing CD45⁺ cells, were sorted together for subsequent analysis. B Isolation of single cells onto the ICell8 chip. Wells containing single live cells (blue circles) were identified by microscopy imaging for further processing; wells with multiple cells or dead cells (orange squares) were excluded. C Reads per cell for the four conditions, represented by a box and whiskers plot. Box represents median and quartiles, while the whiskers are maximum and minimum values, excluding outliers. D Schematic of the immune cell lineage, simplified to include cell populations relevant to this study