Related papers: Biological rhythms generated by a single activator…
In exploring the simulation of human rhythmic perception and synchronization capabilities, this study introduces a computational model inspired by the physical and biological processes underlying rhythm processing. Utilizing a reservoir…
Spatiotemporal patterns are often modeled using reaction-diffusion equations, which combine complex reactions between constituents with ideal diffusive motion. Such descriptions neglect physical interactions between constituents, which…
We present a design framework to induce stable oscillations through mixed feedback control. We provide conditions on the feedback gain and on the balance between positive and negative feedback contributions to guarantee robust oscillations.…
A one-component bistable reaction-diffusion system with asymmetric nonlocal coup ling is derived as limiting case of a two-component activator-inhibitor reaction -diffusion model with differential advection. The effects of asymmetric…
Recent observations of beating signals in the excitation energy transfer dynamics of photosynthetic complexes have been interpreted as evidence for sustained coherences that are sufficiently long-lived for energy transport and coherence to…
The study of synchronization in populations of coupled biological oscillators is fundamental to many areas of biology to include neuroscience, cardiac dynamics and circadian rhythms. Studying these systems may involve tracking the…
Several different enzymes display an apparent diffusion coefficient that increases with the concentration of their substrate. Moreover, their motion becomes directed in substrate gradients. Currently, there are several competing models for…
Macroscopic ensembles of radiating dipoles are ubiquitous in the physical and natural sciences. In the classical limit the dipoles can be described as damped-driven oscillators, which are able to spontaneously synchronize and collectively…
How patterns and structures undergo symmetry breaking and self-organize within biological systems from initially homogeneous states is a key issue for biological development. The activator-inhibitor (AI) mechanism, derived from…
Chemical reaction rates must increasingly be determined in systems that evolve under the control of external stimuli. In these systems, when a reactant population is induced to cross an energy barrier through forcing from a temporally…
In an oscillatory medium, a region which oscillates faster than its surroundings can act as a source of outgoing waves. Such pacemaker-generated waves can synchronize the whole medium and are present in many chemical and biological systems,…
Recent ultrafast optical experiments show that excitons in large biological light-harvesting complexes are coupled to molecular vibration modes. These high-frequency vibrations will not only affect the optical response, but also drive the…
We study the dynamical regimes demonstrated by a pair of identical 3-element ring oscillators (reduced version of synthetic 3-gene genetic Repressilator) coupled using the design of the "quorum sensing (QS)" process natural for…
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…
We study the response of one dimensional diffusive systems, consisting of particles interacting via symmetric or asymmetric exclusion, to time-periodic driving from two reservoirs coupled to the ends. The dynamical response of the system…
The dynamical backaction from a periodically driven optical or microwave cavity can reduce the damping of a mechanical resonator, leading to parametric instability accompanied by self-sustained oscillations. Fundamentally, the driving…
There is a high degree of compartmentalization in the living cell where various compartments sustain different chemical reactions and transport reactants among themselves. It is exactly such situation that is investigated. The main…
This paper proposes a control theoretic framework to model and analyze the self-organized pattern formation of molecular concentrations in biomolecular communication networks, emerging applications in synthetic biology. In biomolecular…
Most biochemical reactions in living cells rely on diffusive search for target molecules or regions in a heterogeneous overcrowded cytoplasmic medium. Rapid re-arrangements of the medium constantly change the effective diffusivity felt…
Subharmonic response is a well known phenomena in, e.g., deterministic nonlinear dynamical systems. We investigate the conditions under which such subharmonic oscillations can persist for a long time in open systems with stochastic dynamics…