期刊
NATURE COMMUNICATIONS
卷 9, 期 -, 页码 -出版社
NATURE PUBLISHING GROUP
DOI: 10.1038/s41467-018-03214-y
关键词
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资金
- US National Institute of Diabetes and Digestive and Kidney Diseases [R24DK092760, K08DK114527-01]
- National Institute of Allergy and Infectious Diseases [R37AI039394]
- National Heart, Lung, Blood Institute Progenitor Cell Biology Consortium [UO1-HL100001]
- Progenitor Cell Translation Consortium [UO1-HL134812]
- Doris Duke Medical Foundation
- St. Baldrick's Foundation
- Pedals for Pediatrics
- Wenner-Gren Foundation
- Howard Hughes Medical Institute
A better understanding of the cell-fate transitions that occur in complex cellular ecosystems in normal development and disease could inform cell engineering efforts and lead to improved therapies. However, a major challenge is to simultaneously identify new cell states, and their transitions, to elucidate the gene expression dynamics governing cell-type diversification. Here, we present CellRouter, a multifaceted single-cell analysis platform that identifies complex cell-state transition trajectories by using flow networks to explore the subpopulation structure of multi-dimensional, single-cell omics data. We demonstrate its versatility by applying CellRouter to single-cell RNA sequencing data sets to reconstruct cell-state transition trajectories during hematopoietic stem and progenitor cell (HSPC) differentiation to the erythroid, myeloid and lymphoid lineages, as well as during re-specification of cell identity by cellular reprogramming of monocytes and B-cells to HSPCs. CellRouter opens previously undescribed paths for in-depth characterization of complex cellular ecosystems and establishment of enhanced cell engineering approaches.
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