Quantifying pluripotency landscape of cell differentiation from scRNA-seq data by continuous birth-death process
Fig 1
Flowchart of the Landscape of Differentiation Dynamics (LDD) method.
A: A pool of single cells, from which we can obtain the gene expression matrix by single cell sequencing. B: After preprocessing, quality control, and dimension reduction, a low-dimensional data matrix is obtained. C: The samples are clustered into different types. Undirected differentiation paths are determined by a transition matrix between clusters. D: After applying the continuous birth-death process to model the whole differentiation process, the potential V(x), differentiation directions, and landscape can be constructed.