How the asymmetry of internal potential influences the shape of I-V characteristic of nanochannels

Ion transport in biological and synthetic nanochannels is characterized by such phenomena as ion current fluctuations, rectification, and pumping. Recently, it has been shown that the nanofabricated synthetic pores could be considered as analogous to biological channels with respect to their transport characteristics \cite{Apel, Siwy}. The ion current rectification is analyzed. Ion transport through cylindrical nanopores is described by the Smoluchowski equation. The model is considering the symmetric nanopore with asymmetric charge distribution. In this model, the current rectification in asymmetrically charged nanochannels shows a diode-like shape of $I-V$ characteristic. It is shown that this feature may be induced by the coupling between the degree of asymmetry and the depth of internal electric potential well. The role of concentration gradient is discussed

Trapping Dynamics with Gated Traps: Stochastic Resonance-Like Phenomenon

We present a simple one-dimensional trapping model prompted by the problem of ion current across biological membranes. The trap is modeled mimicking the ionic channel membrane behaviour. Such voltage-sensitive channels are open or closed depending on the value taken by a potential. Here we have assumed that the external potential has two contributions: a determinist periodic and a stochastic one. Our model shows a resonant-like maximum when we plot the amplitude of the oscillations in the absorption current vs. noise intensity. The model was solved both numerically and using an analytic approximation and was found to be in good accord with numerical simulations.Comment: RevTex, 5 pgs, 3 figure

Flashing annihilation term of a logistic kinetic as a mechanism leading to Pareto distributions

It is shown analytically that the flashing annihilation term of a Verhulst kinetic leads to the power--law distribution in the stationary state. For the frequency of switching slower than twice the free growth rate this provides the quasideterministic source of a Levy noises at the macroscopic level.Comment: 1 fi

Effect of Non Gaussian Noises on the Stochastic Resonance-Like Phenomenon in Gated Traps

We exploit a simple one-dimensional trapping model introduced before, prompted by the problem of ion current across a biological membrane. The voltage-sensitive channels are open or closed depending on the value taken by an external potential that has two contributions: a deterministic periodic and a stochastic one. Here we assume that the noise source is colored and non Gaussian, with a $q$-dependent probability distribution (where $q$ is a parameter indicating the departure from Gaussianity). We analyze the behavior of the oscillation amplitude as a function of both $q$ and the noise correlation time. The main result is that in addition to the resonant-like maximum as a function of the noise intensity, there is a new resonant maximum as a function of the parameter $q$.Comment: Communication to LAWNP01, Proceedings to be published in Physica D, RevTex, 8 pgs, 5 figure

Correlation studies of open and closed states fluctuations in an ion channel: Analysis of ion current through a large conductance locust potassium channel

Ion current fluctuations occurring within open and closed states of large conductance locust potassium channel (BK channel) were investigated for the existence of correlation. Both time series, extracted from the ion current signal, were studied by the autocorrelation function (AFA) and the detrended fluctuation analysis (DFA) methods. The persistent character of the short- and middle-range correlations of time series is shown by the slow decay of the autocorrelation function. The DFA exponent $\alpha$ is significantly larger than 0.5. The existence of strongly-persistent long-range correlations was detected only for closed-states fluctuations, with $\alpha=0.98\pm0.02$. The long-range correlation of the BK channel action is therefore determined by the character of closed states. The main outcome of this study is that the memory effect is present not only between successive conducting states of the channel but also independently within the open and closed states themselves. As the ion current fluctuations give information about the dynamics of the channel protein, our results point to the correlated character of the protein movement regardless whether the channel is in its open or closed state.Comment: 12 pages, 5 figures; to be published in Phys. Rev.

Simple model for 1/f noise

We present a simple stochastic mechanism which generates pulse trains exhibiting a power law distribution of the pulse intervals and a $1/f^\alpha$ power spectrum over several decades at low frequencies with $\alpha$ close to one. The essential ingredient of our model is a fluctuating threshold which performs a Brownian motion. Whenever an increasing potential $V(t)$ hits the threshold, $V(t)$ is reset to the origin and a pulse is emitted. We show that if $V(t)$ increases linearly in time, the pulse intervals can be approximated by a random walk with multiplicative noise. Our model agrees with recent experiments in neurobiology and explains the high interpulse interval variability and the occurrence of $1/f^\alpha$ noise observed in cortical neurons and earthquake data.Comment: 4 pages, 4 figure

On the simple random-walk models of ion-channel gate dynamics reflecting long-term memory

Several approaches to ion-channel gating modelling have been proposed. Although many models describe the dwell-time distributions correctly, they are incapable of predicting and explaining the long-term correlations between the lengths of adjacent openings and closings of a channel. In this paper we propose two simple random-walk models of the gating dynamics of voltage and Ca2+-activated potassium channels which qualitatively reproduce the dwell-time distributions, and describe the experimentally observed long-term memory quite well. Biological interpretation of both models is presented. In particular, the origin of the correlations is associated with fluctuations of channel mass density. The long-term memory effect, as measured by Hurst R/S analysis of experimental single-channel patch-clamp recordings, is close to the behaviour predicted by our models. The flexibility of the models enables their use as templates for other types of ion channel

Exact nonmarkovianity measure based on time autocorrelation functions

It is shown that the nonmarkovianity measure based on autocorrelation functions is equivalent to, and easier to use than the exact Bachelier-Smoluchowski-Chapman-Kolmogorov equation. A few examples of the application of the former are discussed. It is found that nonmarkovian are: most of the processes with the stationary correlation function $C(t,s)=C(|t-s|)$ (with notable exception of the stationary Ornstein-Uhlenbeck process), fractional Brownian motions, chaotic processes, quantum oscillators, and chemical reactions