Nature MethodsBioinformaticsPeer-reviewed journal article
Diffusion pseudotime robustly reconstructs lineage branching
Laleh Haghverdi, Maren Buettner, F. Alexander Wolf, Florian Buettner, Fabian J. Theis
Abstract
Single-cell gene expression profiles of differentiating cells encode their intrinsic latent temporal order. We describe an efficient way to robustly estimate this order according to a diffusion pseudotime, which measures transitions on all length scales between cells using diffusion-like random walks. This allows us to identify cells that undergo branching decisions or are in metastable states, and thereby genes differentially regulated at these states.
- assay: scRNA-seq
- research focus: trajectory inference
- research focus: differential expression
- approach: deep learning
- approach: statistical model
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