Related papers: Dynamics of sparse Boolean networks with multi-nod…

Many discrete models of biological networks rely exclusively on Boolean variables and many tools and theorems are available for analysis of strictly Boolean models. However, multilevel variables are often required to account for threshold…

Gauge fields are a central concept in fundamental theories of physics, and responsible for mediating long-range interactions between elementary particles. Recently, it has been proposed that dynamical gauge fields can be naturally…

We develop a method for reconstructing regulatory interconnection networks between variables evolving according to a linear dynamical system. The work is motivated by the problem of gene regulatory network inference, that is, finding causal…

We study how to efficiently control an interacting few-body system consisting of three harmonically trapped bosons. Specifically we investigate the process of modulating the interparticle interactions to drive an initially non-interacting…

We study the quantum dynamics of the Bose-Hubbard model on a ladder formed by two rings coupled by tunneling effect. By implementing the Bogoliubov approximation scheme, we prove that, despite the presence of the inter-ring coupling term,…

Due to the scarcity of quantitative details about biological phenomena, quantitative modeling in systems biology can be compromised, especially at the subcellular scale. One way to get around this is qualitative modeling because it requires…

We benchmark a selection of semiclassical and perturbative dynamics techniques by investigating the correlated evolution of a cavity-bound atomic system to assess their applicability to study problems involving strong light-matter…

Boolean networks have been proposed as potentially useful models for genetic control. An important aspect of these networks is the stability of their dynamics in response to small perturbations. Previous approaches to stability have assumed…

Discrete dynamical systems can exhibit complex behaviour from the iterative application of straightforward local rules. A famous example are cellular automata whose global dynamics are notoriously challenging to analyze. To address this, we…

As a discrete approach to genetic regulatory networks, Boolean models provide an essential qualitative description of the structure of interactions among genes and proteins. Boolean models generally assume only two possible states…

We study quantum dynamics in the framework of repeated interactions between a system and a stream of identical probes. We present a coarse-grained master equation that captures the system's dynamics in the natural regime where interactions…

Coordination of dynamical routes can alleviate traffic congestion and is essential for the coming era of autonomous self-driving cars. However, dynamical route coordination is difficult and many existing routing protocols are either static…

The quantum dynamics of open many-body systems poses a challenge for computational approaches. Here we develop a stochastic scheme based on the positive P phase-space representation to study the nonequilibrium dynamics of coupled spin-boson…

We studied the interaction of a two-level atom with a frequency modulated cavity mode in an ideal optical cavity. The system, described by a Jaynes-Cumming Hamiltonian, gave rise to a set of stiff nonlinear first order equations solved…

Using Boolean networks as prototypical examples, the role of symmetry in the dynamics of heterogeneous complex systems is explored. We show that symmetry of the dynamics, especially in critical states, is a controlling feature that can be…

To obtain explicit understanding of the behavior of dynamical systems, geometrical methods and slow-fast analysis have proved to be highly useful. Such methods are standard for smooth dynamical systems, and increasingly used for continuous,…

Living systems have time-evolving interactions that, until recently, could not be identified accurately from recorded time series in the presence of noise. Stankovski et al. (Phys. Rev. Lett. 109 024101, 2012) introduced a method based on…

Dynamic coupling of cavities to a quantum network is of major interest to distributed quantum information processing schemes based on cavity quantum electrodynamics. This can be achieved by active tuning a mediating atom-cavity system. In…

The dynamics of an ensemble of bistable elements under the influence of noise and with global time-delayed coupling is studied numerically by using a Langevin description and analytically by using 1) a Gaussian approximation and 2) a…

Bifurcations mark qualitative changes of long-term behavior in dynamical systems and can often signal sudden ("hard") transitions or catastrophic events (divergences). Accurately locating them is critical not just for deeper understanding…