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Plate IV.456 · Publications

Diffusion pseudotime robustly reconstructs lineage branching

Article in Nature Methods, 29 August 2016.

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  1. Laleh Haghverdi
  2. Maren Büttner
  3. F Alexander Wolf
  4. Florian Buettner
  5. Fabian J Theis

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.

Versions2

  1. PublishedNature Methods10.1038/nmeth.3971
  2. PreprintbioRxiv10.1101/041384

Cite

@article{haghverdi2016diffusion,
  title = {{Diffusion pseudotime robustly reconstructs lineage branching}},
  author = {Haghverdi, Laleh and Büttner, Maren and Wolf, F Alexander and Buettner, Florian and Theis, Fabian J},
  journal = {Nature Methods},
  publisher = {Springer Science and Business Media LLC},
  year = {2016},
  month = aug,
  doi = {10.1038/nmeth.3971},
  url = {https://doi.org/10.1038/nmeth.3971},
  pmid = {27571553}
}
.bib file