RT Journal Article SR Electronic T1 Diffusion pseudotime robustly reconstructs lineage branching JF bioRxiv FD Cold Spring Harbor Laboratory SP 041384 DO 10.1101/041384 A1 Laleh Haghverdi A1 Maren Büttner A1 F. Alexander Wolf A1 Florian Buettner A1 Fabian J. Theis YR 2016 UL http://biorxiv.org/content/early/2016/03/02/041384.abstract AB 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.