Dynamics of Oscillators Coupled by a Medium with Adaptive Impact

In this article we study the dynamics of coupled oscillators. We use mechanical metronomes that are placed over a rigid base. The base moves by a motor in a one-dimensional direction and the movements of the base follow some functions of the phases of the metronomes (in other words, it is controlled to move according to a provided function). Because of the motor and the feedback, the phases of the metronomes affect the movements of the base while on the other hand, when the base moves, it affects the phases of the metronomes in return. For a simple function for the base movement (such as $y = \gamma_{x} [r \theta_1 + (1 - r) \theta_2]$ in which $y$ is the velocity of the base, $\gamma_{x}$ is a multiplier, $r$ is a proportion and $\theta_1$ and $\theta_2$ are phases of the metronomes), we show the effects on the dynamics of the oscillators. Then we study how this function changes in time when its parameters adapt by a feedback. By numerical simulations and experimental tests, we show that the dynamic of the set of oscillators and the base tends to evolve towards a certain region. This region is close to a transition in dynamics of the oscillators; where more frequencies start to appear in the frequency spectra of the phases of the metronomes

Graph Theory and Networks in Biology

In this paper, we present a survey of the use of graph theoretical techniques in Biology. In particular, we discuss recent work on identifying and modelling the structure of bio-molecular networks, as well as the application of centrality measures to interaction networks and research on the hierarchical structure of such networks and network motifs. Work on the link between structural network properties and dynamics is also described, with emphasis on synchronization and disease propagation.Comment: 52 pages, 5 figures, Survey Pape

Dynamical Systems on Networks: A Tutorial

We give a tutorial for the study of dynamical systems on networks. We focus especially on "simple" situations that are tractable analytically, because they can be very insightful and provide useful springboards for the study of more complicated scenarios. We briefly motivate why examining dynamical systems on networks is interesting and important, and we then give several fascinating examples and discuss some theoretical results. We also briefly discuss dynamical systems on dynamical (i.e., time-dependent) networks, overview software implementations, and give an outlook on the field.Comment: 39 pages, 1 figure, submitted, more examples and discussion than original version, some reorganization and also more pointers to interesting direction

Critical phenomena in complex networks

The combination of the compactness of networks, featuring small diameters, and their complex architectures results in a variety of critical effects dramatically different from those in cooperative systems on lattices. In the last few years, researchers have made important steps toward understanding the qualitatively new critical phenomena in complex networks. We review the results, concepts, and methods of this rapidly developing field. Here we mostly consider two closely related classes of these critical phenomena, namely structural phase transitions in the network architectures and transitions in cooperative models on networks as substrates. We also discuss systems where a network and interacting agents on it influence each other. We overview a wide range of critical phenomena in equilibrium and growing networks including the birth of the giant connected component, percolation, k-core percolation, phenomena near epidemic thresholds, condensation transitions, critical phenomena in spin models placed on networks, synchronization, and self-organized criticality effects in interacting systems on networks. We also discuss strong finite size effects in these systems and highlight open problems and perspectives.Comment: Review article, 79 pages, 43 figures, 1 table, 508 references, extende

Synchronization in complex networks

Synchronization processes in populations of locally interacting elements are in the focus of intense research in physical, biological, chemical, technological and social systems. The many efforts devoted to understand synchronization phenomena in natural systems take now advantage of the recent theory of complex networks. In this review, we report the advances in the comprehension of synchronization phenomena when oscillating elements are constrained to interact in a complex network topology. We also overview the new emergent features coming out from the interplay between the structure and the function of the underlying pattern of connections. Extensive numerical work as well as analytical approaches to the problem are presented. Finally, we review several applications of synchronization in complex networks to different disciplines: biological systems and neuroscience, engineering and computer science, and economy and social sciences.Comment: Final version published in Physics Reports. More information available at http://synchronets.googlepages.com