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. 2016 Oct;13(10):845-8.
doi: 10.1038/nmeth.3971. Epub 2016 Aug 29.

Diffusion pseudotime robustly reconstructs lineage branching

Laleh Haghverdi  1   2 , Maren Büttner  1 , F Alexander Wolf  1 , Florian Buettner  1   3 , Fabian J Theis  1   2
Affiliations

Diffusion pseudotime robustly reconstructs lineage branching

Laleh Haghverdi et al. Nat Methods. 2016 Oct.

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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References

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