Related papers: Asymmetry between Activators and Deactivators in F…

Turn-taking behaviour is simulated in a coupled agents system. Each agent is modelled as a mobile robot with two wheels. A recurrent neural network is used to produce the motor outputs and to hold the internal dynamics. Agents are developed…

Among the versatile forms of dynamical patterns of activity exhibited by the brain, oscillations are one of the most salient and extensively studied, yet are still far from being well understood. In this paper, we provide various structural…

Cellular functions are based on the complex interplay of proteins, therefore the structure and dynamics of these protein-protein interaction (PPI) networks are the key to the functional understanding of cells. In the last years, large-scale…

For networks of pulse-coupled oscillators with delayed excitatory coupling, we analyze the firing behaviors depending on coupling strength and transmission delay. The parameter space consisting of strength and delay is partitioned into two…

Turing instability in activator-inhibitor systems provides a paradigm of nonequilibrium pattern formation; it has been extensively investigated for biological and chemical processes. Turing pattern formation should furthermore be possible…

Active adaptive matter has attracted considerable interest due to its rich, largely unexplained dynamics and its relevance to a wide range of synthetic and biological materials. An important subclass of such systems consists of active…

Interactions between units in phyical, biological, technological, and social systems usually give rise to intrincate networks with non-trivial structure, which critically affects the dynamics and properties of the system. The focus of most…

Linear Regression and neural networks are widely used to model data. Neural networks distinguish themselves from linear regression with their use of activation functions that enable modeling nonlinear functions. The standard argument for…

Robust coordination and organization in large ensembles of nonlinear oscillatory units play a vital role in a wide range of natural and engineered system. The control of self-organizing network-coupled systems has recently seen significant…

The articulation process of dynamical networks is studied with a functional map, a minimal model for the dynamic change of relationships through iteration. The model is a dynamical system of a function $f$, not of variables, having a…

It is well known amongst molecular biologists that proteins with a common ancestor and that perform the same function in similar organisms, can have rather different amino-acid sequences. Mutations have altered the amino-acid sequences…

Spectra of real world networks exhibit properties which are different from the random networks. One such property is the existence of a very high degeneracy at zero eigenvalues. In this work, we provide possible reasons behind occurrence of…

Production networks are integral to economic dynamics, yet dis-aggregated network data on inter-firm trade is rarely collected and often proprietary. Here we situate company-level production networks among networks from other domains…

Networks of degrade-and-fire oscillators are elementary models of populations of synthetic gene circuits with negative feedback, which show elaborate phenomenology while being amenable to mathematical analysis. In addition to thorough…

Real-world networks in technology, engineering and biology often exhibit dynamics that cannot be adequately reproduced using network models given by smooth dynamical systems and a fixed network topology. Asynchronous networks give a…

Protein conformational changes are activated processes essential for protein functions. Activation in a protein differs from activation in a small molecule in that it involves directed and systematic energy flows through preferred channels…

We propose a dissipative electro-elastic network model (DENM) to describe the dynamics and statistics of electrostatic fluctuations at active sites of proteins. The model combines the harmonic network of residue beads with overdamped…

We present a sequence-based probabilistic formalism that directly addresses co-operative effects in networks of interacting positions in proteins, providing significantly improved contact prediction, as well as accurate quantitative…

Recently, new results on percolation of interdependent networks have shown that the percolation transition can be first order. In this paper we show that, when considering antagonistic interactions between interacting networks, the…

Background: If biology is modular then clusters, or communities, of proteins derived using only protein interaction network structure should define protein modules with similar biological roles. We investigate the link between biological…