Related papers: Dissipation in non-steady state regulatory circuit…
Complex systems are often characterized by the interplay of multiple interconnected dynamical processes operating across a range of temporal scales. This phenomenon is widespread in both biological and artificial scenarios, making it…
Random fluctuations caused by environmental noise can lead to decoherence in quantum systems. Exploring and controlling such dissipative processes is both fundamentally intriguing and essential for harnessing quantum systems to gain…
Non-linear oscillators serve important functions in many biological systems, including within the inner ear and neuronal networks. The sustainment of oscillations in noisy environments requires continuous energy dissipation, quantified by…
We show how one may analytically compute the stationary density of the distribution of molecular constituents in populations of cells in the presence of noise arising from either bursting transcription or translation, or noise in…
Synthetic genetic circuits are implemented in living cells for their operation. During gene expression, proteins are produced from the respective genes, by formation of complexes through the process of transcription and translation. In…
We study the information dynamics in a network of spin-$1/2$ particles when edges representing $XY$ interactions are randomly added to a disconnected graph accordingly to a probability distribution characterized by a "weighting" parameter.…
Stochasticity is both exploited and controlled by cells. Although the intrinsic stochasticity inherent in biochemistry is relatively well understood, cellular variation, or 'noise', is predominantly generated by interactions of the system…
This paper deals with the phase noise affecting communication systems, where local oscillators are employed to obtain reference signals for carrier and timing synchronizations. The most common discrete-time phase noise channel model is…
Information-to-energy conversion with feedback measurement stands as one of the most intriguing aspects of the thermodynamics of information in the nanoscale. To date, experiments have focused on feedback protocols for work extraction. Here…
We consider diffusive lattice gases on a ring and analyze the stability of their density profiles conditionally to a current deviation. Depending on the current, one observes a phase transition between a regime where the density remains…
We study an interacting particle system whose dynamics depends on an interacting random environment. As the number of particles grows large, the transition rate of the particles slows down (perhaps because they share a common resource of…
The dynamics and structure of nonequilibrium liquids, driven by non-conservative forces which can be either external or internal, generically hold the signature of the net dissipation of energy in the thermostat. Yet, disentangling…
Understanding how information can efficiently spread in distributed systems under noisy communications is a fundamental question in both biological research and artificial system design. When agents are able to control whom they interact…
We introduce a thermodynamically consistent, minimal stochastic model for complementary logic gates built with field-effect transistors. We characterize the performance of such gates with tools from information theory and study the…
The effect of small-amplitude noise on excitable systems with large time-scale separation is analyzed. It is found that small random perturbations of the fast excitatory variable result in the onset of a quasi-deterministic limit cycle…
We assess the impact of cell cycle noise on gene circuit dynamics. For bistable genetic switches and excitable circuits, we find that transitions between metastable states most likely occur just after cell division and that this…
Theoretical arguments and empirical evidence in neuroscience suggests that organisms represent or model their environment by minimizing a variational free-energy bound on the surprise associated with sensory signals from the environment. In…
Distributed computing models typically assume reliable communication between processors. While such assumptions often hold for engineered networks, e.g., due to underlying error correction protocols, their relevance to biological systems,…
We observe the propagation of information in a system of self-replicating strings of code (``Artificial Life'') as a function of fitness and mutation rate. Comparison with theoretical predictions based on the reaction-diffusion equation…
Regulatory dynamics in biology is often described by continuous rate equations for continuously varying chemical concentrations. Binary discretization of state space and time leads to Boolean dynamics. In the latter, the dynamics has been…