Related papers: Simple post-translational circadian clock models f…
Quantum simulation offers a route to study open-system molecular dynamics in non-perturbative regimes by programming the interactions among electronic, vibrational, and environmental degrees of freedom on similar energy scales. Trapped-ion…
We present new experimental results on the quenching dynamics of an extended thermo-convective system (a network array of approximately 100 convective oscillators) going through a secondary subcritical bifurcation. We characterize a…
Organisms often use cyclic changes in the concentrations of chemicals species to precisely time biological functions. Underlying these biochemical clocks are chemical reactions and transport processes, which are inherently stochastic.…
The regulatory mechanisms driving progression of the yeast cell cycle appears to be comprised of an interacting network of transcription factors (TFs), cyclin-dependent kinases (CDK) and ubiquitin ligases. From a systems perspective the…
Quantum devices featuring mid-circuit measurement and reset capabilities, such as quantum computers and dual-species Rydberg quantum simulators, enable the realization of quantum cellular automata. These systems evolve in discrete time…
We investigate the simulation of Jahn-Teller models with two non-degenerate vibrational modes using a circuit QED architecture. Typical Jahn-Teller systems are anisotropic and require at least a two-frequency description. The proposed…
This paper presents an algorithm for approximating certain types of dynamical systems given by a system of ordinary delay differential equations by a Boolean network model. Often Boolean models are much simpler to understand than complex…
Almost all organisms show some kind of time periodicity in their behavior. Especially in mammals the neurons of the suprachiasmatic nucleus form a biological clock regulating the activity-inactivity cycle of the animal. This clock is…
We present initial results regarding the existence, stability and interaction of linear and nonlinear vibrational modes in a system of two coupled, one dimensional lattices with unequal numbers of masses. The effects on these nonlinear…
In human cells, estrogenic signals induce cyclical association and dissociation of specific proteins with the DNA in order to activate transcription of estrogen-responsive genes. These oscillations can be modeled by assuming a large number…
In view of the current availability and variety of measured data, there is an increasing demand for powerful signal processing tools that can cope successfully with the associated problems that often arise when data are being analysed. In…
We investigate the dynamics of a three-dimensional system modeling a molecular mechanism for the circadian rhythm in Drosophila. We first prove the existence of a compact attractor in the region with biological meaning. Under the assumption…
We discuss several classes of integrable Floquet systems, i.e. systems which do not exhibit chaotic behavior even under a time dependent perturbation. The first class is associated with finite-dimensional Lie groups and infinite-dimensional…
Quantum batteries (QBs), acting as energy storage devices, have potential applications in future quantum science and technology. However, the QBs inevitably losses energy due to their interaction with environment. How to enhance the…
We previously showed that a quantum quench in a one-dimensional translation invariant system produces undamped oscillations of a local observable when the post-quench state includes a single-quasiparticle mode and the observable couples to…
Different methods have been recently put forward and implemented experimentally to inverse engineer the time dependent Hamiltonian of a quantum system and accelerate slow adiabatic processes via non-adiabatic shortcuts. In the…
Embedding efficient calculation instructions into biochemical system has always been a research focus in synthetic biology. One of the key problems is how to sequence the chemical reaction modules that act as units of computation and make…
Novel mathematical models of three different repressilator topologies are introduced. As designable transcription factors have been shown to bind to DNA non-cooperatively, we have chosen models containing non-cooperative elements. The…
Temperature compensation is a notable property of circadian oscillators that indicates the insensitivity of the oscillator system's period to temperature changes; the underlying mechanism, however, is still unclear. We investigated the…
After reviewing commutativity of second-order linear time-varying analog systems, the inverse commutativity conditions are derived for these systems by considering non-zero initial conditions. On the base of these conditions, the…