Extended Data Fig. 6: Dataset integration of iMGLs with mouse AD and xenotransplanted human microglia. | Nature Immunology

Extended Data Fig. 6: Dataset integration of iMGLs with mouse AD and xenotransplanted human microglia.

From: Exposure of iPSC-derived human microglia to brain substrates enables the generation and manipulation of diverse transcriptional states in vitro

Extended Data Fig. 6

a) UMAP projection of LIGER integration of iMGL or brain biopsy dataset, cells colored by identity to cluster iMGL_2 (green), iMGL_8 (magenta) highlighted or BB_GPNMB_LPL cluster (black). b) Comparing overlap of iMGL DAM (iMGL_2 and iMGL_8) enriched genes with those enriched in murine DAMs in the 5xFAD genotype6 (p value: 5.41e-19, hypergeometric test). c) UMAP projection of LIGER integration of iMGL datasets with in vivo mouse microglia (from wild-type and 5xFAD genotypes). Cells colored by dataset. d) UMAP projection (as in c) of iMGLs (top) or mouse microglia (bottom) cells colored for expression of GPNMB (left) and ITGAX (right). e) UMAP projection LIGER integration of iMGLs and xenotransplanted iMGLs. Cells colored by dataset. f) UMAP projection (as in e) colored by expression of shared factor DAM metagene. Right, top constituent genes of this shared factor. g) UMAP projection (as in e), of iMGLs (top) or xenograft microglia (bottom) colored by identity to iMGL_2, iMGL_8 or DAM. h) UMAP projection (as in e), of iMGLs (top) or xenograft microglia (bottom) cells colored for expression of GPNMB (left) and LPL (right).

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