bistability stochastic sensitivity

Stoichiometric producer-grazer models are nonsmooth due to the Liebig's Law of Minimum and can generate new dynamics such as bistability for producer-grazer interactions. Environmental noises can be extremely important and change dynamical behaviors of a stoichiometric producer-grazer model. In this paper, we consider a stochastically forced producer-grazer model and study the phenomena of noise-induced state switching between two stochastic attractors in the bistable zone. Namely, there is a frequent random hopping of phase trajectories between attracting basins of the attractors...

An approach was developed to describe the first passage time (FPT) in multistep stochastic processes with discrete states governed by a master equation (ME). The approach is an extension of the totally absorbing boundary approach given for calculation of FPT in one-step processes [N. G. Van Kampen, Stochastic Processes in Physics and Chemistry (Elsevier Science Publishers, North Holland, Amsterdam, 2007)] to include multistep processes where jumps are not restricted to adjacent sites. In addition, a Fokker-Planck equation (FPE) was derived from the multistep ME, assuming the continuity of the state variable...

Huang et al. [1] recently developed a toxin-dependent predator-prey model and analyzed its global dynamics. Their results showed that environmental toxins may influence both predators and prey and induce bistable situation, and intermediate toxin concentrations may affect predators disproportionately through biomagnification. Environmental noises can change the dynamical behaviors of the toxin-based predator-prey model. In this paper, by formulating a stochastically forced predator-prey model with environmental toxins, we study the dynamical phenomenon of noise-induced transitions from coexistence to prey-only extirpation in the bistable zone...

With the recent rising application of mathematical models in the field of computational systems biology, the interest in sensitivity analysis methods had increased. The stochastic approach, based on chemical master equations, and the deterministic approach, based on ordinary differential equations (ODEs), are the two main approaches for analyzing mathematical models of biochemical systems. In this work, the performance of these approaches to compute sensitivity coefficients is explored in situations where stochastic and deterministic simulation can potentially provide different results (systems with unstable steady states, oscillators with population extinction and bistable systems)...

Steady-state Visual Evoked Potential, SSVEP), as the most commonly used communication paradigm for non-implantable Brain-Computer Interface (BCI), boasts the advantages of unnecessity of training, noise immunity and periodicity. The traditional SSVEP extraction methods can effectively identify the target frequency contained in original EEG, however, the required data length usually lasts a few seconds. In this paper, bistable stochastic resonance (BSR) is applied to SSVEP extraction. BSR is very sensitive to amplitude mutation and frequency fluctuation of the input signal, making the output difference can be used for the detection of the target frequency...

Machinery vibration signal is a typical multi-component signal and fault features are often submerged by some interference components. To accurately extract fault features, a weak feature enhancement method based on empirical wavelet transform (EWT) and an improved adaptive bistable stochastic resonance (IABSR) is proposed. This method makes full use of the signal decomposition performance of EWT and the signal enhancement of the IABSR to achieve the purpose of fault feature enhancement in low frequency band of FFT spectrum...

We analyze the effect of weak-noise-induced transitions on the dynamics of the FitzHugh-Nagumo neuron model in a bistable state consisting of a stable fixed point and a stable unforced limit cycle. Bifurcation and slow-fast analysis give conditions on the parameter space for the establishment of this bi-stability. In the parametric zone of bi-stability, weak-noise amplitudes may strongly inhibit the neuron's spiking activity. Surprisingly, increasing the noise strength leads to a minimum in the spiking activity, after which the activity starts to increase monotonically with an increase in noise strength...

Stochastic reaction networks that exhibit bistable behavior are common in systems biology, materials science, and catalysis. Sampling of stationary distributions is crucial for understanding and characterizing the long-time dynamics of bistable stochastic dynamical systems. However, simulations are often hindered by the insufficient sampling of rare transitions between the two metastable regions. In this paper, we apply the parallel replica method for a continuous time Markov chain in order to improve sampling of the stationary distribution in bistable stochastic reaction networks...

Life is sustained by a variety of cyclic processes such as cell division, muscle contraction, and neuron firing. The periodic signals powering these processes often direct a variety of other downstream systems, which operate at different time scales and must have the capacity to divide or multiply the period of the master clock. Period modulation is also an important challenge in synthetic molecular systems, where slow and fast components may have to be coordinated simultaneously by a single oscillator whose frequency is often difficult to tune...

BACKGROUND: In favorable conditions bacterial doubling time is less than 20 min, shorter than DNA replication time. In E. coli a single round of genome replication lasts about 40 min and it must be accomplished about 20 min before cell division. To achieve such fast growth rates bacteria perform multiple replication rounds simultaneously. As a result, when the division time is as short as 20 min E. coli has about 8 copies of origin of replication (ori) and the average copy number of the genes situated close to ori can be 4 times larger than those near the terminus of replication (ter)...

Cellular differentiations are often regulated by bistable switches resulting from specific arrangements of multiple positive feedback loops (PFL) fused to one another. Although bistability generates digital responses at the cellular level, stochasticity in chemical reactions causes population heterogeneity in terms of its differentiated states. We hypothesized that the specific arrangements of PFLs may have evolved to minimize the cellular heterogeneity in differentiation. In order to test this we investigated variability in cellular differentiation controlled either by parallel or serial arrangements of multiple PFLs having similar average properties under extrinsic and intrinsic noises...

Photochromic molecules can be reversibly converted between two bistable conformations by light, and are considered as promising building blocks in novel macromolecular structures for sensing and imaging techniques. We have studied individual molecular triads consisting of two strong fluorophores (perylene bisimide) that are covalently linked via a photochromic unit (dithienylcyclopentene) and distinguished between deliberate switching and spontaneous blinking. It was verified that the probability for observing deliberate light-induced switching of a single triad (rather than stochastic blinking) amounts to 0...

Certain visual stimuli can have two possible interpretations. These perceptual interpretations may alternate stochastically, a phenomenon known as bistability. Some classes of bistable stimuli, including binocular rivalry, are sensitive to bias from input through other modalities, such as sound and touch. Here, we address the question whether bistable visual motion stimuli, known as plaids, are affected by vestibular input that is caused by self-motion. In Experiment 1, we show that a vestibular self-motion signal biases the interpretation of the bistable plaid, increasing or decreasing the likelihood of the plaid being perceived as globally coherent or transparently sliding depending on the relationship between self-motion and global visual motion directions...

T follicular helper (Tfh) cells are a highly plastic subset of CD4+ T cells specialized in providing B cell help and promoting inflammatory and effector responses during infectious and immune-mediate diseases. Helicobacter pylori is the dominant member of the gastric microbiota and exerts both beneficial and harmful effects on the host. Chronic inflammation in the context of H. pylori has been linked to an upregulation in T helper (Th)1 and Th17 CD4+ T cell phenotypes, controlled in part by the cytokine, interleukin-21...

The cyclic AMP (cAMP)-response element-binding protein (CREB) family of transcription factors is crucial in regulating gene expression required for long-term memory (LTM) formation. Upon exposure of sensory neurons to the neurotransmitter serotonin (5-HT), CREB1 is activated via activation of the protein kinase A (PKA) intracellular signaling pathways, and CREB2 as a transcriptional repressor is relieved possibly via phosphorylation of CREB2 by mitogen-activated protein kinase (MAPK). Song et al. [18] proposed a minimal model with only interlinked positive and negative feedback loops of transcriptional regulation by the activator CREB1 and the repressor CREB2...

Previous studies have shown that biological noise may drive dynamic phenotypic mosaicism in isogenic unicellular organisms. However, there is no evidence for a similar mechanism operating in metazoans. Here we show that the endothelial-restricted gene, von Willebrand factor (VWF), is expressed in a mosaic pattern in the capillaries of many vascular beds and in the aorta. In capillaries, the mosaicism is dynamically regulated, with VWF switching between ON and OFF states during the lifetime of the animal. Clonal analysis of cultured endothelial cells reveals that dynamic mosaic heterogeneity is controlled by a low-barrier, noise-sensitive bistable switch that involves random transitions in the DNA methylation status of the VWF promoter...

In this paper, the effects of noise and time delay on stochastic bifurcations are investigated theoretically and numerically in a time-delayed Duffing-Van der Pol oscillator subjected to white noise. Due to the time delay, the random response is not Markovian. Thereby, approximate methods have been adopted to obtain the Fokker-Planck-Kolmogorov equation and the stationary probability density function for amplitude of the response. Based on the knowledge that stochastic bifurcation is characterized by the qualitative properties of the steady-state probability distribution, it is found that time delay and feedback intensity as well as noise intensity will induce the appearance of stochastic P-bifurcation...

The Rubin's vase illusion evokes a bistable perception that alters between a pair of faces or a vase. In this study we looked at the oscillatory and network level effects that could differentiate between these two perceptions. Thus, tackling the issue of what leads to conscious access and, thus resulting in perceptual dominance between two competing signals. We conducted a study within the MEG, during which participants observed a brief presentation (150msec) of the Rubin's vase illusion, and subsequently reported the dominant percept...

Cell polarization is a ubiquitous process which results in cellular constituents being organized into discrete intracellular spatial domains. It occurs in a variety of cell types, including epithelial cells, immune system cells and neurons. A key player in this process is the Par protein family whose asymmetric localization to anterior and posterior parts of the cell is crucial for proper division and cell fate specification. In this paper, we explore a stochastic analogue of the temporal model of Par protein interactions first developed in Dawes & Munro (Dawes and Munro 2011 Biophys...

How alternative chromatin-based regulatory states can be made stable and heritable in order to provide robust epigenetic memory is poorly understood. Here, we develop a stochastic model of the silencing system in Saccharomyces cerevisiae that incorporates cooperative binding of the repressive SIR complex and antisilencing histone modifications, in addition to positive feedback in Sir2 recruitment. The model was able to reproduce key features of SIR regulation of an HM locus, including heritable bistability, dependence on the silencer elements, and sensitivity to SIR dosage...