Trajectory-based energy landscapes of gene regulatory networks.

ABSTRACT: Multistability and natural biological variability can result in significant heterogeneity within a cell population, leading to challenges in understanding and modulating cell behavior. Energy landscapes can offer qualitatively intuitive visualizations of cell phenotype and facilitate a more quantitative understanding of cellular dynamics, but current methods for landscape generation are mathematically involved and often require specific system properties (e.g., ergodicity or independent gene/protein probability distributions) that do not always hold. Here, we present a simple kinetic Monte Carlo-based method for landscape generation from a system of ordinary differential equations using only simulation trajectories initialized throughout the phase space of interest. The resulting landscape

SUBMITTER: Venkatachalapathy H 

PROVIDER: S-EPMC7896034 | biostudies-literature | 2021 Feb

REPOSITORIES: biostudies-literature