The mean first passage time of a three-level atomic optical bistable system subjected to noise

The transient properties of a three-level atomic optical bistable system in the presence of multiplicative and additive noises are investigated. The explicit expressions of the mean first-passage time （MFPT） of the transition from the high intracavity intensity state to the low one are obtained by numerical computations. The impacts of the intensities of the multiplicative noise DM and the additive noise DA, the intensity of correlation between two noises λ, and the intensity of the incident light y on the MFPT are discussed, respectively. Our results show： （i） for the case of no correlation between two noises （2, = 0.0）, the increase in DM and DA can lead to an increase in the probability of the transition to the low intracavity intensity state, while the increase in y can lead to a retardation of the transition; and （ii） for the case of correlation between two noises （λ≠ 0.0）, the increase in λ can cause an increase in the probability of the transition, and the increase in DA can cause a retardation of the transition firstly and then an increase in the probability of the transition, i.e., the noise-enhanced stability is observed for the case of correlation between two noises.

Logical stochastic resonance in a cross-bifurcation non-smooth system

This paper investigates logical stochastic resonance(LSR)in a cross-bifurcation non-smooth system driven by Gaussian colored noise.In this system,a bifurcation parameter triggers a transition between monostability,bistability and tristability.By using Novikov's theorem and the unified colored noise approximation method,the approximate Fokker-Planck equation is obtained.Then we derive the generalized potential function and the transition rates to analyze the LSR phenomenon using numerical simulations.We simulate the logic operation of the system in the bistable and tristable regions respectively.We assess the impact of Gaussian colored noise on the LSR and discover that the reliability of the logic response depends on the noise strength and the bifurcation parameter.Furthermore,it is found that the bistable region has a more extensive parameter range to produce reliable logic operation compared with the tristable region,since the tristable region is more sensitive to noise than the bistable one.

Quantum intelligence on protein folding pathways

We study the protein folding problem on the base of our quantum approach by considering the model of protein chain with nine amino-acid residues.We introduce the concept of distance space and its projections on a XY-plane,and two characteristic quantities,one is called compactness of protein structure and another is called probability ratio involving shortest path.The concept of shortest path enables us to reduce the 388×388 density matrix to a 2×2 one from which the von Neumann entropy reflecting certain quantum coherence feature is naturally defined.We observe the time evolution of average distance and compactness solved from the classical random walk and quantum walk,we also compare the features of the time-dependence of Shannon entropy and von Neumann entropy.All the results not only reveal the fast quantum folding time but also unveil the existence of quantum intelligence hidden behind in choosing protein folding pathways.

Multi-Resonant-Activation for a System Only Driven by Multi-State Noise

We consider the escape of the particles multi-state noise. It is shown that, the noise can make over fluctuating potential barrier for a system only driven by a the particles escape over the fluctuating potential barrier in some circumstances; but in other circumstances, it can not. If the noise can make the particle escape over the fluctuating potential barrier, the mean first passage time （MFPT） can display the phenomenon of multi-resonant-activation. For this phenomenon, there are two kinds of resonant activation to appear. One is resonant activation for the MFPTs as the function of the flipping rates of the fluctuating potential barrier; the other is that for the MFPTs as the functions of the transition rates of the multi-state noise.

Resonant Activation Induced by Four-Value Noise

The phenomenon of the resonant activation （RA） of a particle over a fluctuating potential barrier with a four-value noise is investigated. It is shown that the mean first passage time （MFPT） displays six minima as the function of the transition rates γ1, γ2, γ3, γ4, γ5, and 76 of the four-value noise, respectively. In addition, the effect of other parameters of the system, such as the noise strength D of the additive Gaussian white noise and the parameter value a, b, c, and d of the four-value noise, on the RAs is also investigated.

Biased Diffusive Search Triggered by ATP Binding During Kinesin's Stepping

In this paper, we present an asymmetry conformational potential with a reflecting boundary and an absorbing boundary, in which the diffusive search of the free head of kinesin motor can be biased toward its forward binding site. Under a wide range of condition, using first-passage time analysis we perform numerical simulation to the Langevin equation, and obtain the dependence of the dwell time for forward steps on the load force. And we calculate the expression for the dwell time by the Laplace transform method. Both numerical and analytical results show that the dwell times exponentially depend on the load force, which provide a simple physical explanation for experimental data. Our results suggest that ATP binding-conformation change in the neck linker plays an important role in unidirectional steps during kinesin＇s mechanochemical cycle.

Could one single dichotomous noise cause resonant activation for exit time over potential barrier?

This paper studies the mean first passage time （or exit time, or escape time） over the non-fluctuating potential harrier for a system driven only by a dichotomous noise. It finds that the dichotomous noise can make the particles escape over the potential barrier, in some circumstances; but in other circumstances, it can not. In the case that the particles escape over the potential harrier, a resonant activation phenomenon for the mean first passage time over the potential barrier is obtained.

Spherical Confinement Generates Entropic Force to Accelerate Polymer Chain Detachment

To understand the dynamic process of polymer detachment, it is necessary to determine the mean detachment time of a single breakable link, which is modeled as a spring. Normally, this time can be viewed as the escape of a Brownian particle from the potential well of the spring. However, as the free dangling length of the polymer chain increases, the conformational entropy of the chain is affected by geometric confinement. It means that the wall exerts a repulsive force on the chain, resulting in accelerated link detachment from a macroscopic perspective. In this work, we investigate the effect of entropy on the detachment rate in the case where the substrate is spherical. We demonstrate that spherical confinement accelerates chain detachment both inside and outside the sphere. An analytical expression for the mean detachment time of breakable links is given, which includes an additional pre-factor that is related to the partition function. Additionally, we analyze the expressions for entropic forces inside the sphere, outside the sphere, and on a flat wall, comparing their magnitudes to explain the difference in mean detachment time.

Slowing down critical transitions via Gaussian white noise and periodic force

Stochastic perturbations and periodic excitations are generally regarded as sources to induce critical transitions in complex systems. However, we find that they are also able to slow down an imminent critical transition. To illustrate this phenomenon, a periodically driven bistable eutrophication model with Gaussian white noise is introduced as a prototype class of real systems.The residence probability(RP) is presented to measure the possibility that the given system stays in the oligotrophic state versus Gaussian white noise and periodic force. Variations in the mean first passage time(MFPT) and the mean velocity(MV) of the first right-crossing process are also calculated respectively. We show that the frequency of the periodic force can increase the MFPT while reduce the MV under different control parameters. Nevertheless, the noise intensity or the amplitude may result in an increase of the RP only in the case of control parameters approaching the critical values. Furthermore, for an impending critical transition, an increase of the RP appears with the interaction between the amplitude and noise intensity or the combination of the noise intensity and frequency, while the interaction of the frequency and amplitude leads to an extension of the MFPT or a decrease of the MV. As a result, an increase of the RP and MFPT, and a decrease of the MVobtained from our results claim that it is possible to slow down an imminent critical transition via Gaussian white noise and periodic force.

An effective description of a periodic one-dimensional hopping model

The periodic one-dimensional hopping model is useful for studying the motion of microscopic particles in the thermal noise environment. Based on the explicit formulations of mean velocity, mean first passage time and effective diffusion constant, a general N internal states or even infinite internal states model can be approximated by a one state model that retains the basic properties of the original process. This effective description aids the analysis of biochemical and biophysical problems. This effective description also implies that, to some extent, many processes can be well described by simple two-state models, or even one-state models.