Diffusion pseudotime robustly reconstructs lineage branching
Item Type: | Article |
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Title: | Diffusion pseudotime robustly reconstructs lineage branching |
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Creators Name: | Haghverdi, L. and Büttner, M. and Wolf, F.A. and Buettner, F. and Theis, F.J. |
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Abstract: | 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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Keywords: | Algorithms, Cell Differentiation, Cell Lineage, Cluster Analysis, Computer-Assisted Numerical Analysis, Computer Simulation, Diffusion, Embryonic Stem Cells, Genetic Models, High-Throughput Nucleotide Sequencing, Single-Cell Analysis, Statistical Models, Animals, Mice |
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Source: | Nature Methods |
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ISSN: | 1548-7091 |
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Publisher: | Nature Publishing Group |
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Volume: | 13 |
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Number: | 10 |
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Page Range: | 845-848 |
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Date: | October 2016 |
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Official Publication: | https://doi.org/10.1038/nmeth.3971 |
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PubMed: | View item in PubMed |
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Related to: | |
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