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We propose a new autonomous dynamical system of dimension N=4 that demonstrates the regime of stable two- frequency motions and period-doubling bifurcations of a two-dimensional torus. It is shown that the period-doubling bifurcation of the two-dimensional torus is not followed by the resonance phenomenon, and the two-dimensional ergodic torus undergoes a period-doubling bifurcation. The interaction of two generators is also analyzed. The phenomenon of external and mutual synchronization of two-frequency oscillations is observed, for which winding number locking on a two- dimensional torus takes place

We report on the effect of vibrational resonance in a spatially extended system of coupled noisy oscillators under the action of two periodic forces, a low-frequency one (signal) and a high-frequency one (carrier). Vibrational resonance manifests itself in the fact that for optimally selected values of high-frequency force amplitude, the response of the system to a low-frequency signal is optimal. This phenomenon is a synthesis of two effects, a noise- induced phase transition leading to bistability, and a conventional vibrational resonance, resulting in the optimization of signal processing. Numerical simulations, which demonstrate this effect for an extended system, can be understood by means of a zero-dimensional "effective" model. The behavior of this "effective" model is also confirmed by an experimental realization of an electronic circuit.

We investigate the relationship between the loss of synchronization and the onset of shadowing breakdown via unstable dimension variability in complex systems. In the neighborhood of the critical transition to strongly nonhyperbolic behavior, the system undergoes on-off intermittency with respect to the synchronization state. There are potentially severe consequences of these facts on the validity of the computer-generated trajectories obtained from dynamical systems whose synchronization manifolds share the same nonhyperbolic properties

An approach is presented for coupled chaotic systems with weak coherent motion, from which we estimate the upper bound value for the absolute phase difference in phase synchronous states. This approach shows that synchronicity in phase implies synchronicity in the time of events, a characteristic explored to derive an equation to detect phase synchronization, based on the absolute difference between the time of these events. We demonstrate the potential use of this approach for the phase coherent and the funnel attractor of the Rossler system, as well as for the spiking/bursting Rulkov map.

Untitled
(2004)

Background: Inferring regulatory interactions between genes from transcriptomics time-resolved data, yielding reverse engineered gene regulatory networks, is of paramount importance to systems biology and bioinformatics studies. Accurate methods to address this problem can ultimately provide a deeper insight into the complexity, behavior, and functions of the underlying biological systems. However, the large number of interacting genes coupled with short and often noisy time-resolved read-outs of the system renders the reverse engineering a challenging task. Therefore, the development and assessment of methods which are computationally efficient, robust against noise, applicable to short time series data, and preferably capable of reconstructing the directionality of the regulatory interactions remains a pressing research problem with valuable applications.
Results: Here we perform the largest systematic analysis of a set of similarity measures and scoring schemes within the scope of the relevance network approach which are commonly used for gene regulatory network reconstruction from time series data. In addition, we define and analyze several novel measures and schemes which are particularly suitable for short transcriptomics time series. We also compare the considered 21 measures and 6 scoring schemes according to their ability to correctly reconstruct such networks from short time series data by calculating summary statistics based on the corresponding specificity and sensitivity. Our results demonstrate that rank and symbol based measures have the highest performance in inferring regulatory interactions. In addition, the proposed scoring scheme by asymmetric weighting has shown to be valuable in reducing the number of false positive interactions. On the other hand, Granger causality as well as information-theoretic measures, frequently used in inference of regulatory networks, show low performance on the short time series analyzed in this study.
Conclusions: Our study is intended to serve as a guide for choosing a particular combination of similarity measures and scoring schemes suitable for reconstruction of gene regulatory networks from short time series data. We show that further improvement of algorithms for reverse engineering can be obtained if one considers measures that are rooted in the study of symbolic dynamics or ranks, in contrast to the application of common similarity measures which do not consider the temporal character of the employed data. Moreover, we establish that the asymmetric weighting scoring scheme together with symbol based measures (for low noise level) and rank based measures (for high noise level) are the most suitable choices.

Realistic networks display not only a complex topological structure, but also a heterogeneous distribution of weights in the connection strengths. Here we study synchronization in weighted complex networks and show that the synchronizability of random networks with a large minimum degree is determined by two leading parameters: the mean degree and the heterogeneity of the distribution of node's intensity, where the intensity of a node, defined as the total strength of input connections, is a natural combination of topology and weights. Our results provide a possibility for the control of synchronization in complex networks by the manipulation of a few parameters

We present an approach to generate (multivariate) twin surrogates (TS) based on recurrence properties. This technique generates surrogates which correspond to an independent copy of the underlying system, i.e. they induce a trajectory of the underlying system starting at different initial conditions. We show that these surrogates are well suited to test for complex synchronisation and exemplify this for the paradigmatic system of Rossler oscillators. The proposed test enables to assess the statistical relevance of a synchronisation analysis from passive experiments which are typical in natural systems

The transition from fully synchronized behavior to two-cluster dynamics is investigated for a system of N globally coupled chaotic oscillators by means of a model of two coupled logistic maps. An uneven distribution of oscillators between the two clusters causes an asymmetry to arise in the coupling of the model system. While the transverse period-doubling bifurcation remains essentially unaffected by this asymmetry, the transverse pitchfork bifurcation is turned into a saddle-node bifurcation followed by a transcritical riddling bifurcation in which a periodic orbit embedded in the synchronized chaotic state loses its transverse stability. We show that the transcritical riddling transition is always hard. For this, we study the sequence of bifurcations that the asynchronous point cycles produced in the saddle-node bifurcation undergo, and show how the manifolds of these cycles control the magnitude of asynchronous bursts. In the case where the system involves two subpopulations of oscillators with a small mismatch of the parameters, the transcritical riddling will be replaced by two subsequent saddle-node bifurcations, or the saddle cycle involved in the transverse destabilization of the synchronized chaotic state may smoothly shift away from the synchronization manifold. In this way, the transcritical riddling bifurcation is substituted by a symmetry-breaking bifurcation, which is accompanied by the destruction of a thin invariant region around the symmetrical chaotic state.

This paper employs a complex network approach to determine the topology and evolution of the network of extreme precipitation that governs the organization of extreme rainfall before, during, and after the Indian Summer Monsoon (ISM) season. We construct networks of extreme rainfall events during the ISM (June-September), post-monsoon (October-December), and pre-monsoon (March-May) periods from satellite-derived (Tropical Rainfall Measurement Mission, TRMM) and rain-gauge interpolated (Asian Precipitation Highly Resolved Observational Data Integration Towards the Evaluation of Water Resources, APHRODITE) data sets. The structure of the networks is determined by the level of synchronization of extreme rainfall events between different grid cells throughout the Indian subcontinent. Through the analysis of various complex-network metrics, we describe typical repetitive patterns in North Pakistan (NP), the Eastern Ghats (EG), and the Tibetan Plateau (TP). These patterns appear during the pre-monsoon season, evolve during the ISM, and disappear during the post-monsoon season. These are important meteorological features that need further attention and that may be useful in ISM timing and strength prediction.

We apply the recently developed symbolic resonance analysis to electroencephalographic measurements of event- related brain potentials (ERPs) in a language processing experiment by using a three-symbol static encoding with varying thresholds for analyzing the ERP epochs, followed by a spin-flip transformation as a nonlinear filter. We compute an estimator of the signal-to-noise ratio (SNR) for the symbolic dynamics measuring the coherence of threshold-crossing events. Hence, we utilize the inherent noise of the EEG for sweeping the underlying ERP components beyond the encoding thresholds. Plotting the SNR computed within the time window of a particular ERP component (the N400) against the encoding thresholds, we find different resonance curves for the experimental conditions. The maximal differences of the SNR lead to the estimation of optimal encoding thresholds. We show that topographic brain maps of the optimal threshold voltages and of their associated coherence differences are able to dissociate the underlying physiological processes, while corresponding maps gained from the customary voltage averaging technique are unable to do so

Three-dimensional quantification of structures in trabecular bone using measures of complexity
(2009)

The study of pathological changes of bone is an important task in diagnostic procedures of patients with metabolic bone diseases such as osteoporosis as well as in monitoring the health state of astronauts during long-term space flights. The recent availability of high-resolution three-dimensional (3D) imaging of bone challenges the development of data analysis techniques able to assess changes of the 3D microarchitecture of trabecular bone. We introduce an approach based on spatial geometrical properties and define structural measures of complexity for 3D image analysis. These measures evaluate different aspects of organization and complexity of 3D structures, such as complexity of its surface or shape variability. We apply these measures to 3D data acquired by high-resolution microcomputed tomography (mu CT) from human proximal tibiae and lumbar vertebrae at different stages of osteoporotic bone loss. The outcome is compared to the results of conventional static histomorphometry and exhibits clear relationships between the analyzed geometrical features of trabecular bone and loss of bone density, but also indicate that the measures reveal additional information about the structural composition of bone, which were not revealed by the static histomorphometry. Finally, we have studied the dependency of the developed measures of complexity on the spatial resolution of the mu CT data sets.