Computational systems biology in disease modeling and control, review and perspectives

R Yue, A Dutta - npj Systems Biology and Applications, 2022 - nature.com
Omics-based approaches have become increasingly influential in identifying disease
mechanisms and drug responses. Considering that diseases and drug responses are co …

Solving Inverse Stochastic Problems from Discrete Particle Observations Using the Fokker--Planck Equation and Physics-Informed Neural Networks

X Chen, L Yang, J Duan, GE Karniadakis - SIAM Journal on Scientific …, 2021 - SIAM
The Fokker--Planck (FP) equation governing the evolution of the probability density function
(PDF) is applicable to many disciplines, but it requires specification of the coefficients for …

A data-driven approach for discovering stochastic dynamical systems with non-Gaussian Lévy noise

Y Li, J Duan - Physica D: Nonlinear Phenomena, 2021 - Elsevier
With the rapid increase of valuable observational, experimental and simulating data for
complex systems, much effort is being devoted to discovering governing laws underlying the …

An optimal control method to compute the most likely transition path for stochastic dynamical systems with jumps

W Wei, T Gao, X Chen, J Duan - Chaos: An Interdisciplinary Journal of …, 2022 - pubs.aip.org
Many complex real world phenomena exhibit abrupt, intermittent, or jumping behaviors,
which are more suitable to be described by stochastic differential equations under non …

Machine learning framework for computing the most probable paths of stochastic dynamical systems

Y Li, J Duan, X Liu - Physical Review E, 2021 - APS
The emergence of transition phenomena between metastable states induced by noise plays
a fundamental role in a broad range of nonlinear systems. The computation of the most …

[HTML][HTML] Learning the temporal evolution of multivariate densities via normalizing flows

Y Lu, R Maulik, T Gao, F Dietrich… - … Journal of Nonlinear …, 2022 - pubs.aip.org
In this work, we propose a method to learn multivariate probability distributions using sample
path data from stochastic differential equations. Specifically, we consider temporally …

A machine learning method for computing quasi-potential of stochastic dynamical systems

Y Li, S Xu, J Duan, X Liu, Y Chu - Nonlinear Dynamics, 2022 - Springer
The concept of quasi-potential plays a central role in understanding the mechanisms of rare
events and characterizing the statistics of transition behaviors in stochastic dynamics …

Tipping time in a stochastic Leslie predator–prey model

A Yang, H Wang, S Yuan - Chaos, Solitons & Fractals, 2023 - Elsevier
Critical transitions are usually accompanied by a decline in ecosystem services and
potentially have negative impacts on human economies. Although some early warning …

Discovering transition phenomena from data of stochastic dynamical systems with Lévy noise

Y Lu, J Duan - Chaos: An Interdisciplinary Journal of Nonlinear …, 2020 - pubs.aip.org
It is a challenging issue to analyze complex dynamics from observed and simulated data. An
advantage of extracting dynamic behaviors from data is that this approach enables the …

Dynamical transition of phenotypic states in breast cancer system with Lévy noise

Y Song, W Xu, W Wei, L Niu - Physica A: Statistical Mechanics and its …, 2023 - Elsevier
Breast cancer cells exhibit three distinct phenotypes: basal, stem-like, and luminal states.
These phenotypes are closely associated with the invasion and spread of breast cancer. As …