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Diffusion pseudotime robustly reconstructs lineage branching.
Nat. Methods 13, 845-848 (2016)
The temporal order of differentiating cells is intrinsically encoded in their single-cell expression profiles. We describe an efficient way to robustly estimate this order according to diffusion pseudotime (DPT), which measures transitions between cells using diffusion-like random walks. Our DPT software implementations make it possible to reconstruct the developmental progression of cells and identify transient or metastable states, branching decisions and differentiation endpoints.
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Publication type
Article: Journal article
Document type
Scientific Article
Keywords
Rna-sequencing Data; Single-cell Data; Expression; Heterogeneity; Trajectories; Progression; Commitment; Embryo; Maps; Stem
Language
english
Publication Year
2016
HGF-reported in Year
2016
ISSN (print) / ISBN
1548-7091
e-ISSN
1548-7105
Journal
Nature Methods
Quellenangaben
Volume: 13,
Issue: 10,
Pages: 845-848
Publisher
Nature Publishing Group
Publishing Place
New York, NY
Reviewing status
Peer reviewed
Institute(s)
Institute of Computational Biology (ICB)
POF-Topic(s)
30205 - Bioengineering and Digital Health
Research field(s)
Enabling and Novel Technologies
PSP Element(s)
G-503800-001
WOS ID
WOS:000385194600020
Scopus ID
84984643819
PubMed ID
27571553
Erfassungsdatum
2016-08-30