3 years ago

Reversed graph embedding resolves complex single-cell trajectories

Reversed graph embedding resolves complex single-cell trajectories
Li Wang, Qi Mao, Cole Trapnell, Ying Tang, Raghav Chawla, Xiaojie Qiu, Hannah A Pliner
Single-cell trajectories can unveil how gene regulation governs cell fate decisions. However, learning the structure of complex trajectories with multiple branches remains a challenging computational problem. We present Monocle 2, an algorithm that uses reversed graph embedding to describe multiple fate decisions in a fully unsupervised manner. We applied Monocle 2 to two studies of blood development and found that mutations in the genes encoding key lineage transcription factors divert cells to alternative fates.

Publisher URL: http://dx.doi.org/10.1038/nmeth.4402

DOI: 10.1038/nmeth.4402

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