The Stemformatics myeloid atlas is an integrated transcriptome atlas of human macrophages and dendritic cells that systematically compares freshly isolated tissue-resident, cultured, and pluripotent stem cell–derived myeloid cells. Three classes of tissue-resident macrophage were identified: Kupffer cells and microglia; monocyte-associated; and tumor-associated macrophages. Culture had a major impact on all primary cell phenotypes. Pluripotent stem cell–derived macrophages were characterized by atypical expression of collagen and a highly efferocytotic phenotype. Myeloid subsets, and phenotypes associated with derivation, were reproducible across experimental series including data projected from single-cell studies, demonstrating that the atlas provides a robust reference for myeloid phenotypes. Implementation in Stemformatics.org allows users to visualize patterns of sample grouping or gene expression for user-selected conditions and supports temporary upload of your own microarray or RNA sequencing samples, including single-cell data, to benchmark against the atlas.
CITATION STYLE
Rajab, N., Angel, P. W., Deng, Y., Gu, J., Jameson, V., Kurowska-Stolarska, M., … Wells, C. A. (2021). An integrated analysis of human myeloid cells identifies gaps in in vitro models of in vivo biology. Stem Cell Reports, 16(6), 1629–1643. https://doi.org/10.1016/j.stemcr.2021.04.010
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