Related papers: Information transfer through a signaling module wi…

We show that when cells communicate by contact-mediated interactions, heterogeneity in cell shapes and sizes leads to qualitatively distinct collective behavior in the tissue. For inter-cellular coupling that implements lateral inhibition,…

Using a stochastic nonlinear phase oscillator model, we study the effect of event-triggered feedback on the statistics of interevent intervals. Events are associated with the entering of a new cycle. The feedback is modeled by an…

The interaction among spreading processes on a complex network is a nontrivial phenomenon of great importance. It has recently been realized that cooperative effects among infective diseases can give rise to qualitative changes in the…

Understanding the function of network motifs in an attempt to gain insight into how their combinations create larger reaction networks that drive cellular functions, has been a longstanding pursuit of systems biology. One specific objective…

Cellular signal transduction usually involves activation cascades, the sequential activation of a series of proteins following the reception of an input signal. Here we study the classic model of weakly activated cascades and obtain…

This paper presents an analytical comparison of active and passive receiver models in diffusive molecular communication. In the active model, molecules are absorbed when they collide with the receiver surface. In the passive model, the…

Multiple interlinked positive feedback loops shape the stimulus responses of various biochemical systems, such as the cell cycle or intracellular calcium release. Recent studies with simplified models have identified two advantages of…

A system responding to a stochastic driving signal can be interpreted as computing, by means of its dynamics, an implicit model of the environmental variables. The system's state retains information about past environmental fluctuations,…

This paper presents a method for shaping the transmit pulse of a molecular signal such that the diffusion channel's response is a sharp pulse. The impulse response of a diffusion channel is typically characterised as having an infinitely…

Cells use biochemical networks to translate environmental information into intracellular responses. These responses can be highly dynamic, but how the information is encoded in these dynamics remains poorly understood. Here we investigate…

This paper proposes a methodology to extract a low-dimensional integrate-and-fire model from an arbitrarily detailed single-compartment biophysical model. The method aims at relating the modulation of maximal conductance parameters in the…

Biochemical signalling cascades transduce extracellular stimuli into cellular responses through sequences of discrete, node-to-node activations. While signal fidelity depends critically on local interaction kinetics, the mechanisms…

Biochemical signal transduction, a form of molecular communication, can be modeled using graphical Markov channels with input-modulated transition rates. Such channel models are strongly non-Gaussian. In this paper we use a linear noise…

The paper highlights the role of a positive feedback gating mechanism at the cellular level in the robust- ness and modulation properties of rhythmic activities at the circuit level. The results are presented in the context of half-center…

Energy transfer plays a vital role in many natural and technological processes. In this work, we study the effects of mechanical motion on the excitation transfer through a chain of interacting molecules with application to biological…

In this work, we propose a new communication system for illuminated areas, indoors and outdoors. Light sources in our environments -such as light bulbs or even the sun- are our signal emitters, but we do not modulate data at the light…

We use a computational model to propose a physiological mechanism by which transient control of beta oscillations in the indirect pathway of the basal ganglia is orchestrated at the cellular level. Our model includes a simple and robust…

Biological and living systems process information across spatiotemporal scales, exhibiting the hallmark ability to constantly modulate their behavior to ever-changing and complex environments. In the presence of repeated stimuli, a…

The activity of neurons within brain circuits has been ubiquitously reported to be correlated. The impact of these correlations on brain function has been extensively investigated. Correlations can in principle increase or decrease the…

We formulate general rules for a coarse-graining of the dynamics, which we term `symbolic dynamics', of feedback networks with monotone interactions, such as most biological modules. Networks which are more complex than simple cyclic…