Realizations of kinetic differential equations

G Craciun, MD Johnston, G Szederkényi… - arXiv preprint arXiv …, 2019 - arxiv.org
The induced kinetic differential equation of a reaction network endowed with mass action
type kinetics is a system of polynomial differential equations. The problem studied here is …

Weakly reversible single linkage class realizations of polynomial dynamical systems: an algorithmic perspective

G Craciun, A Deshpande, J Jin - Journal of Mathematical Chemistry, 2024 - Springer
Abstract Systems of differential equations with polynomial right-hand sides are very common
in applications. In particular, when restricted to the positive orthant, they appear naturally …

The effect of characteristic times on collective modes of two quorum sensing coupled identical ring oscillators

E Volkov, EH Hellen - Chaos, Solitons & Fractals, 2021 - Elsevier
There has long been interest in methods to achieve variability of collective modes in systems
of coupled identical oscillators. Extensive multistability and a dynamically rich parameter …

Two nested limit cycles in two-species reactions

I Nagy, VG Romanovski, J Tóth - Mathematics, 2020 - mdpi.com
We search for limit cycles in the dynamical model of two-species chemical reactions that
contain seven reaction rate coefficients as parameters and at least one third-order reaction …

Condition for sustained oscillations in repressilator based on a hybrid modeling of gene regulatory networks

H Sun, JP Comet, M Folschette… - … on Bioinformatics Models …, 2023 - hal.science
In this work, we study the existence of sustained oscillations in the" canonical" repressilator,
a basic synthetic circuit of 3 genes leading to sustained oscillations. Previous works mostly …

Synchronization of fractional-order repressilatory genetic oscillators with time delay

Q Lu, W Lu, Y Zhang - International Journal of Modeling, Simulation …, 2024 - World Scientific
Genetic oscillators have been widely used in modeling key processes of biological systems,
especially cell cycles and circadian rhythms. In particular, repressilatory genetic oscillators …

Identifying and Analyzing Long-term Dynamical Behaviors of Gene Regulatory Networks with Hybrid Modeling

H Sun - 2023 - theses.hal.science
Using dynamical models to reveal dynamical properties of gene regulatory networks can
help us better understand the nature of these biological systems and develop new medical …

Global exponential stability of delayed coupled repressilators in artificial oscillatory networks

Z Liu, X Zhang, X Wang - 2019 IEEE 58th Conference on …, 2019 - ieeexplore.ieee.org
As one of the important artificial oscillatory networks, repressilators have attracted many
attentions due to its function of synthesizing oscillations at the cellular level. In this paper, the …

Controlling the Synchronization of Molecular Oscillators through Indirect Coupling

S Inagaki, N Aubert-Kato - Micromachines, 2022 - mdpi.com
In this article, we study the coupling of a collection of molecular oscillators, called
repressilators, interacting indirectly through enzymatic saturation. We extended a measure …

[PDF][PDF] Abstraction-Based Analysis of Continuous-Time Models in Systems Biology

J Dražanová - is.muni.cz
This thesis deals with several abstractions that create a discrete transition system from an
input continuous-time system with dynamics given by a system of autonomous ODE that are …