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Discrete gene regulatory networks (GRNs) play a vital role in the study of robustness and modularity. A common method of evaluating the robustness of GRNs is to measure their ability to regulate a set of perturbed gene activation patterns…

Neural and Evolutionary Computing · Computer Science 2021-12-14 Zhenyue Qin , Tom Gedeon , Bob McKay

Driven by various kinds of noise, ensembles of limit cycle oscillators can synchronize. In this letter, we propose a general formulation of synchronization of the oscillator ensembles driven by common colored noise with an arbitrary power…

Chaotic Dynamics · Physics 2014-02-11 W. Kurebayashi , K. Fujiwara , T. Ikeguchi

A detailed stochastic model of single-gene auto-regulation is established and its solutions are explored when mRNA dynamics is fast compared with protein dynamics and in the opposite regime. The model includes all the sources of randomness…

Biological Physics · Physics 2015-06-03 Tomás Aquino , Elsa Abranches , Ana Nunes

Synchronization is a fundamental dynamical state of interacting oscillators, observed in natural biological rhythms and in the brain. Global synchronization which occurs when non-linear or chaotic oscillators placed on the nodes of a…

Statistical Mechanics · Physics 2025-10-22 Timoteo Carletti , Lorenzo Giambagli , Riccardo Muolo , Ginestra Bianconi

Oscillatory activity is ubiquitous in natural and engineered network systems. The interaction scheme underlying interdependent oscillatory components governs the emergence of network-wide patterns of synchrony that regulate and enable…

Adaptation and Self-Organizing Systems · Physics 2022-08-12 Tommaso Menara , Giacomo Baggio , Danielle S. Bassett , Fabio Pasqualetti

The synchronization of coupled oscillators is a fascinating manifestation of self-organization that nature employs to orchestrate essential processes of life, such as the beating of the heart. Although it was long thought that synchrony or…

Adaptation and Self-Organizing Systems · Physics 2013-07-29 Erik Andreas Martens , Shashi Thutupalli , Antoine Fourrière , Oskar Hallatschek

We study synchronization of oscillators that are indirectly coupled through their interaction with an environment. We give criteria for the stability or instability of a synchronized oscillation. Using these criteria we investigate…

Adaptation and Self-Organizing Systems · Physics 2009-11-13 Guy Katriel

Finding the conditions that foster synchronization in networked oscillatory systems is critical to understanding a wide range of biological and mechanical systems. However, the conditions proved in the literature for synchronization in…

Systems and Control · Computer Science 2018-05-09 Zahra Aminzare , Biswadip Dey , Elizabeth N. Davison , Naomi Ehrich Leonard

Spontaneous synchronization is a general phenomenon in which a large population of coupled oscillators of diverse natural frequencies self-organize to operate in unison. The phenomenon occurs in physical and biological systems over a wide…

Statistical Mechanics · Physics 2021-03-31 Shamik Gupta , Romain Bachelard , Tarcisio Rocha Filho

Stochastic oscillations in individual cells are usually characterized by a non-monotonic power spectrum with an oscillatory autocorrelation function. Here we develop an analytical approach of stochastic oscillations in a minimal hybrid…

Molecular Networks · Quantitative Biology 2024-02-08 Chen Jia , Hong Qian , Michael Q. Zhang

The question under which conditions oscillators with slightly different frequencies synchronize appears in various settings. We show that synchronization can be achieved even for harmonic oscillators that are bilinearly coupled via a purely…

Chaotic Dynamics · Physics 2023-02-01 Juan N. Moreno , Christopher W. Wächtler , Alexander Eisfeld

We study synchronization of locally coupled noisy phase oscillators which move diffusively in a one-dimensional ring. Together with the disordered and the globally synchronized states, the system also exhibits several wave-like states which…

Biological Physics · Physics 2010-09-22 Fernando Peruani , Ernesto M. Nicola , Luis G. Morelli

This paper deals with an optimal control problem associated to the Kuramoto model describing the dynamical behavior of a network of coupled oscillators. Our aim is to design a suitable control function allowing us to steer the system to a…

Adaptation and Self-Organizing Systems · Physics 2020-05-15 Umberto Biccari , Enrique Zuazua

We have studied neuronal synchronisation in a random network of adaptive exponential integrate-and-fire neurons. We study how spiking or bursting synchronous behaviour appears as a function of the coupling strength and the probability of…

Motivated by recent experimental work, we define and study a deterministic model of the complex miRNA-based regulatory circuit that putatively controls the early stage of myogenesis in human. We aim in particular at a quantitative…

Molecular Networks · Quantitative Biology 2019-06-25 Jonathan Fiorentino , Andrea De Martino

In this paper, we investigate the factors that affect the synchronization of coupled oscillators on networks. By using the edge-intercrossing method, we keep the degree distribution unchanged to see other statistical properties' effects on…

Disordered Systems and Neural Networks · Physics 2007-05-23 Bing Wang , Huanwen Tang , Tao Zhou , Zhilong Xiu

Following the long-lived qualitative-dynamics tradition of explaining behavior in complex systems via the architecture of their attractors and basins, we investigate the patterns of switching between qualitatively distinct trajectories in a…

Adaptation and Self-Organizing Systems · Physics 2016-09-02 Jeffrey Emenheiser , Airlie Chapman , Márton Pósfai , James P. Crutchfield , Mehran Mesbahi , Raissa M. D'Souza

We study synchronization of nonlinear systems that satisfy an incremental passivity property. We consider the case where the control input is subject to a class of disturbances, including constant and sinusoidal disturbances with unknown…

Systems and Control · Computer Science 2013-12-24 He Bai , S. Yusef Shafi

We analyze a class of chemical reaction networks under mass-action kinetics and involving multiple time-scales, whose deterministic and stochastic models display qualitative differences. The networks are inspired by gene-regulatory…

Molecular Networks · Quantitative Biology 2018-01-30 Tomislav Plesa , Radek Erban , Hans G. Othmer

We study a problem of designing ``robust'' external excitations for control and synchronization of an assembly of homotypic harmonic oscillators representing so-called theta neurons. The model of theta neurons (Theta model) captures, in…

Optimization and Control · Mathematics 2024-09-23 Roman Chertovskih , Nikolay Pogodaev , Maxim Staritsyn , Joaquim Da Silva Sewane , Antonio Pedro Aguiar
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