Science Advances · 2020 · 25 citations · 17 references
To gain insights into neutrophil heterogeneity dynamics in the context of sterile inflammation and wound healing, we performed a pseudotime analysis of single-cell flow cytometry data using the spanning-tree progression analysis of density-normalized events algorithm. This enables us to view neutrophil transitional subsets along a pseudotime trajectory and identify distinct VEGFR1, VEGFR2, and CXCR4 high-expressing pro-angiogenic neutrophils. While the proresolving lipid mediator aspirin-triggered resolvin D1 (AT-RvD1) has a known ability to limit neutrophil infiltration, our analysis uncovers a mode of action in which AT-RvD1 leads to inflammation resolution through the selective reprogramming toward a therapeutic neutrophil subset. This accumulation leads to enhanced vascular remodeling in the skinfold window chamber and a proregenerative shift in macrophage and dendritic cell phenotype, resulting in improved wound closure after skin transplantation. As the targeting of functional immune subsets becomes the key to regenerative immunotherapies, single-cell pseudotime analysis tools will be vital in this field.
17
Dimensionality reduction for visualizing single-cell data using UMAP
Étienne Becht, Leland McInnes, John Healy et al. · Nature Biotechnology · 2018 · 5.5K citations
Extracting a cellular hierarchy from high-dimensional cytometry data with SPADE
Peng Qiu, Erin F. Simonds, Sean C. Bendall et al. · Nature Biotechnology · 2011 · 989 citations
Biology, Bioinformatics, Engineering +12