Dynamic gene regulatory network inference from single-cell data using optimal transport.

ABSTRACT:

Motivation

Modelling gene expression is a central problem in systems biology. Single-cell technologies have revolutionized the field by enabling sequencing at the resolution of individual cells. This results in a much richer data compared to what is obtained by bulk technologies, offering new possibilities and challenges for gene regulatory network inference.

Results

In this work, we introduce GRIT (gene regulation inference by transport)-a method to fit a differential equation model and to infer gene regulatory networks from single-cell data using the theory of optimal transport. The idea consists in tracking the evolution of the cell distribution over time and finding the system whose temporal marginals minimize the transport cost with the observations. GRIT is finally use

SUBMITTER: Lamoline F 

PROVIDER: S-EPMC12352743 | biostudies-literature | 2025 Aug

REPOSITORIES: biostudies-literature