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Organ-wide hematopoietic references based on scRNA-seq data in mice A. Workflow for constructing organ-wide hematopoietic references, including both stage-specific atlases and cross-stage references, for each species. B. Visualization of mouse AGM atlas, which includes 27,646 cells and 11 major cell types. Cells are color-coded by their annotated cell types. C. Visualization of mouse FL atlas, which includes 29,948 cells and 11 major cell types. Cells are color-coded by their annotated cell types. D. Dot plot showing the expression of marker genes for cell annotation in mouse FL atlas. The size of the dot corresponds to the percentage of cells expressing the gene. The color represents the average expression level. E. Visualization of mouse BM atlas, which includes 29,948 cells and 14 major cell types. Cells are color-coded by their annotated cell types. F. Visualization of mouse cross-stage hematopoietic reference, which includes 73,878 cells and 28 major cell types across 3 developmental stages (AGM, FL, and BM). Cells are color-coded by their annotated cell types. G. UMAP visualization of the representative mouse cell types and scaled expression of the corresponding cell type-specific marker genes in the mouse cross-stage hematopoietic reference. Cells are color-coded by their annotated cell types in (F) and scaled gene expression levels, respectively. H. Visualization of mouse cross-stage hematopoietic reference. Cells are color-coded by the stages to which they belong. I. Cell number statistics in the mouse cross-stage hematopoietic reference across three developmental stages (AGM, FL, and BM). The colors represent corresponding developmental stages in (H). QC, quality control; SCT, SCTransform; CCA, canonical correlation analysis; ct, cell type; FASTQ, Fast Quality; UMAP, Uniform Manifold Approximation and Projection; Adipo-CAR, Adipo-Cxcl12-abundant-reticular.
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