Related papers: On Boolean gates in fungal colony
Boolean network models of molecular regulatory networks have been used successfully in computational systems biology. The Boolean functions that appear in published models tend to have special properties, in particular the property of being…
We introduce results of computer experiments on information processing in a hexagonal array of vesicles filled with Belousov-Zhabotinsky (BZ) solution in a sub-excitable mode. We represent values of Boolean variables by excitation…
The eukaryotic flagellum beats periodically, driven by the oscillatory dynamics of molecular motors, to propel cells and pump fluids. Small, but perceivable fluctuations in the beat of individual flagella have physiological implications for…
Classical models for predicting current flow in excitable cells such as axons, originally proposed by Hodgkin and Huxley, rely on empirical voltage-gating parameters that quantify ion transport across sodium and potassium ion channels. We…
This paper proposes the use of Eukaryotic cells, namely astrocytes, to develop logic gates. The logic gates are achieved by manipulating the threshold of Ca$^{2+}$ ion flows between the cells, based on the input signals. Through wet-lab…
Boolean networks are powerful mathematical tools for modeling the qualitative dynamics of genetic regulation. Yet inferred models often generate spurious attractors that lack biological viability. In this paper, we propose a parsimonious…
Boolean networks with canalizing functions are used to model gene regulatory networks. In order to learn how such networks may behave under evolutionary forces, we simulate the evolution of a single Boolean network by means of an adaptive…
Living systems routinely consume energy to achieve motility, often using intricate biomolecular machinery. In this work, we show that active droplets can sustain indefinite self-propulsion of a spherical colloid in an otherwise homogeneous,…
We introduce a geometrical extension of the FitzHugh-Nagumo equations describing propagation of electrical impulses in nerve axons. In this extension, the axon is modeled as a warped cylinder, rather than a straight line, as is usually…
It has been suggested that microtubules and other cytoskeletal filaments may act as electrical transmission lines. An electrical circuit model of the microtubule is constructed incorporating features of its cylindrical structure with…
The recent development of genetically encoded calcium indicators enables monitoring in vivo the activity of neuronal populations. Most analysis of these calcium transients relies on linear regression analysis based on the sensory stimulus…
Gapless spectrum of graphene allows easy spatial separation of electrons and holes with an external in-plane electric field. Guided collective plasmon modes can propagate along the separation line, whose amplitude decays with the distance…
Models of pulse formation in nerve conduction have provided manifold insight not only into neuronal dynamics but also the non-linear dynamics of pulse formation in general. Recent observation of neuronal electro-chemical pulses also driving…
This is the second paper of a series of two about the structural properties that influence the asymptotic dynamics of Random Boolean Networks. Here we study the functionally independent clusters in which the relevant elements, introduced…
Excitable membranes are an important type of nonlinear dynamical system and their study can be used to provide a connection between physical and biological circuits. We discuss two models of excitable membranes important in cardiac and…
Flagellated microorganisms overcome the low-Reynolds-number time reversibility by rotating helical flagella. For peritrichous bacteria, such as Escherichia coli, the randomly distributed flagellar filaments align along the same direction to…
Some mechanisms of cardiac arrhythmias can be presented as a composition of elementary acts of block and reflection on the contacts of homogeneous areas of the conducting tissue. For study this phenomena we use an axiomatic one-dimensional…
This paper presents in-depth analysis of the excitable membranes of a biological system. We rigorously prove from the Chay neuron model that the state dependent voltage-sensitive potassium ion-channel and calcium sensitive potassium…
To survive starvation, Bacillus subtilis forms durable spores. After asymmetric cell division, the septum grows around the forespore in a process called engulfment, but the mechanism of force generation is unknown. Here, we derived a novel…
The effect of mechanical interactions between cells in the spreading of bacterial populations was investigated in one-dimensional space. A continuum-mechanics approach, comprising cell migration, proliferation, and exclusion processes, was…