Fig. 5

Late lesion phenotype spatial distributions and transition analyses. (a) Spatial organization of myeloid cell phenotypes in the lesion. Phenotypes in the rim (m3), perivascular space (m4) and NAWM (m7) separate into distinct zones, while lesion center phenotypes (m1, m2, m5, m6, m8, m9) are uniformly distributed. (b) Spatial distribution of astrocyte phenotypes. One phenotype (a1) predominantly occupies the lesion center and the other (a2) occupies the rim. (c) T cells are primarily distributed in the lesion center. (d) PHATE mapping of myeloid cells, showing that two lesion center phenotypes (m2, m6) are on a continuum with perivascular space cells (m4, white arrows). (e) Pseudotime analysis of myeloid cells shows a similar trajectory to PHATE mapping. Phenotype color schemes on the PHATE and Pseudotime plots reflect the color palettes specific to each analysis. Scale bar for a-c = 200 μm. PVS = perivascular space; NAWM = normal-appearing white matter