Extended Data Fig. 7: Profiling of engrafting myeloid cells.
From: Multiomic spatial landscape of innate immune cells at human central nervous system borders
a. UMAP visualization of 9,035 color-coded for Seurat v4 clustering results. Cell type assignment was conducted based on published gene expression signatures. Marimekko chart of the contribution of control and transplanted patient to each cluster. Asterisks indicate the results of statistical testing using one-sided hypergeometric tests. Adjustment for multiple testing was done using the Benjamini–Hochberg method. **p < 0.01; ***p < 0.001. b. Single-cell heatmap depicting the gene expression of the top 7 cluster marker genes per cluster of the cells shown in panel a. The genes are shown at the left-hand side of the heatmap. Color-coding of the cluster is consistent with panel a. The color scale represents Pearson’s residuals from a regularized negative-binomial regression. c. Single-cell heatmap depicting the gene expression of up to top 10 cluster marker genes per cluster of the myeloid cell cluster from Fig. 4 i. d. Comparative analysis of the percentage of Y+ positive cells among all identified Iba1 + , P2RY12 + , TMEM119+ and GLUT5+ cells in the cortex. Positivity for the pan-myeloid marker Iba1 was considered as the maximum achievable percentage of engrafting myeloid cells. The lines connect the dots between results from the same patients. The indicates p values were calculated using paired t-tests.
