Related papers: Optimizing periodicity and polymodality in noise-i…

DNA looping has been observed to enhance and suppress transcriptional noise but it is uncertain which of these two opposite effects is to be expected for given conditions. Here, we derive analytical expressions for the main quantifiers of…

We analyze the motion of an overdamped classical particle in a multidimensional periodic potential, driven by a weak external noise. We demonstrate that in steady-state, the presence of temporal correlations in the noise and spatial…

Noise appears in the brain due to various sources, such as ionic channel fluctuations and synaptic events. They affect the activities of the brain and influence neuron action potentials. Stochastic differential equations have been used to…

The over-damped motion of a Brownian particle in an asymmetric, bistable, fluctuating potential shows noise induced stability: For intermediate fluctuation rates the mean occupancy of minima with an energy above the absolute minimum is…

Additive noise is known to produce counter-intuitive behaviors in nonlinear dynamical systems. Previously, it was shown that systems with a deterministic limit cycle can display bistable switching between metastable states in the presence…

We consider incoherent excitation of multilevel quantum systems, e.g. molecules with multiple vibronic states. We show that (1) the geometric constraints of the matter-field coupling operator guarantee that noise-induced coherences will be…

Biochemical oscillations are ubiquitous in nature and allow organisms to properly time their biological functions. In this paper, we consider minimal Markov state models of nonequilibrium biochemical networks that support oscillations. We…

Previously, we developed a population model incorporating the Allee effect and periodic environmental fluctuations, in which organisms alternate between nomadic and colonial behaviours. This switching strategy is regulated by biological…

Gene regulatory dynamics is governed by molecular processes and therefore exhibits an inherent stochasticity. However, for the survival of an organism it is a strict necessity that this intrinsic noise does not prevent robust functioning of…

Coupling the control of expression stochasticity (noise) to the ability of expression change (plasticity) can alter gene function and influence adaptation. A number of factors, such as transcription re-initiation, strong chromatin…

Regulation of intrinsic noise in gene expression is essential for many cellular functions. Correspondingly, there is considerable interest in understanding how different molecular mechanisms of gene expression impact variations in protein…

We consider an ecological model consisting of two species of predators competing for their common prey with explicit interference competition. With a proper rescaling, the model is portrayed as a singularly perturbed system with one-fast…

An important occurrence in many cellular contexts is the crossing of a prescribed threshold by a regulatory protein. The timing of such events is stochastic as a consequence of the innate randomness in gene expression. A question of…

We study an excitable active rotator with slowly adapting nonlinear feedback and noise. Depending on the adaptation and the noise level, this system may display noise-induced spiking, noise-perturbed oscillations, or stochastic busting. We…

Noise is expected to play an important role in the dynamics of analog systems such as coupled oscillators which have recently been explored as a hardware platform for application in computing. In this work, we experimentally investigate the…

Bursting oscillations are commonly seen as a mechanism for information coding in neuroscience and have also been observed in many physical, biochemical, and chemical systems. This study focuses on the computational investigation of…

The usual interpretation of noise is represented by a sum of many independent two-level elementary random signals with a distribution of relaxation times. In this paper it is demonstrated that also the superposition of many similar…

Multiple time scale molecular dynamics enhances computational efficiency by updating slow motions less frequently than fast motions. However, in practice the largest outer time step possible is limited not by the physical forces but by…

Many transcription factors bind to DNA with a remarkable lack of specificity, so that regulatory binding sites compete with an enormous number of non-regulatory 'decoy' sites. For an auto-regulated gene, we show decoy sites decrease noise…

Circadian clocks are biochemical oscillators that allow organisms to estimate the time of the day. These oscillators are inherently noisy due to the discrete nature of the reactants and the stochastic character of their interactions. To…