Heterogeneous distribution of metabolites across plant species

We investigate the distribution of flavonoids, a major category of plant secondary metabolites, across species. Flavonoids are known to show high species specificity, and were once considered as chemical markers for understanding adaptive evolution and characterization of living organisms. We investigate the distribution among species using bipartite networks, and find that two heterogeneous distributions are conserved among several families: the power-law distributions of the number of flavonoids in a species and the number of shared species of a particular flavonoid. In order to explain the possible origin of the heterogeneity, we propose a simple model with, essentially, a single parameter. As a result, we show that two respective power-law statistics emerge from simple evolutionary mechanisms based on a multiplicative process. These findings provide insights into the evolution of metabolite diversity and characterization of living organisms that defy genome sequence analysis for different reasons.     

Robustness of heterogeneous complex networks

In this paper we study the robustness of heterogeneous preferential attachment networks. The robustness of a network measures its structural tolerance to the random removal of nodes and links. We numerically analyze the influence of the affinity parameters on a set of ensemble-averaged robustness metrics. We show that the presence of heterogeneity does not fundamentally alter the smooth nature of the fragmentation process of the models. We also show that a moderate level of locality translates into slight improvements in the robustness metrics, which prompts us to conjecture an evolutionary argument for the existence of real networks with power-law scaling in their connectivity and clustering distributions.     

Cooperation and community structure in social networks

Situations of conflict giving rise to social dilemmas are widespread in society. One way of studying these important phenomena is by using simplified models of individual behavior under conflicting situations such as evolutionary game theory. Starting from the observation that individuals interact through networks of acquaintances, we study the evolution of cooperation on model and real social networks through well known paradigmatic games. Using a new payoff scheme which leaves replicator dynamics invariant, we find that cooperation is sustainable in such networks, even in the difficult case of the prisoner’s dilemma. The evolution and stability of cooperation implies the condensation of game strategies into the existing community structures of the social network in which clusters of cooperators survive thanks to their higher connectivity towards other fellow cooperators.     

A unified model for Sierpinski networks with scale-free scaling and small-world effect

In this paper, we propose an evolving Sierpinski gasket, based on which we establish a model of evolutionary Sierpinski networks (ESNs) that unifies deterministic Sierpinski network [Z.Z. Zhang, S.G. Zhou, T. Zou, L.C. Chen, J.H. Guan, Eur. Phys. J. B 60 (2007) 259] and random Sierpinski network [Z.Z. Zhang, S.G. Zhou, Z. Su, T. Zou, J.H. Guan, Eur. Phys. J. B 65 (2008) 141] to the same framework. We suggest an iterative algorithm generating the ESNs. On the basis of the algorithm, some relevant properties of presented networks are calculated or predicted analytically. Analytical solution shows that the networks under consideration follow a power-law degree distribution, with the distribution exponent continuously tuned in a wide range. The obtained accurate expression of clustering coefficient, together with the prediction of average path length reveals that the ESNs possess small-world effect. All our theoretical results are successfully contrasted by numerical simulations. Moreover, the evolutionary prisoner’s dilemma game is also studied on some limitations of the ESNs, i.e., deterministic Sierpinski network and random Sierpinski network.     

An empirical study of Chinese language networks

Chinese is spoken by the largest number of people in the world, and it is regarded as one of the most important languages. In this paper, we explore the statistical properties of Chinese language networks (CLNs) within the framework of complex network theory. Based on one of the largest Chinese corpora, i.e. People’s Daily Corpus, we construct two networks (CLN1 and CLN2) from two different respects, with Chinese words as nodes. In CLN1, a link between two nodes exists if they appear next to each other in at least one sentence; in CLN2, a link represents that two nodes appear simultaneously in a sentence. We show that both networks exhibit small-world effect, scale-free structure, hierarchical organization and disassortative mixing. These results indicate that in many topological aspects Chinese language shapes complex networks with organizing principles similar to other previously studied language systems, which shows that different languages may have some common characteristics in their evolution processes. We believe that our research may shed some new light into the Chinese language and find some potentially significant implications.     

Unified index to quantifying heterogeneity of complex networks

Although recent studies have revealed that degree heterogeneity of a complex network has significant impact on the network performance and function, a unified definition of the heterogeneity of a network with any degree distribution is absent. In this paper, we define a heterogeneity index 0≤H<1 to quantify the degree heterogeneity of any given network. We analytically show the existence of an upper bound of H=0.5 for exponential networks, thus explain why exponential networks are homogeneous. On the other hand, we also analytically show that the heterogeneity index of an infinite power law network is between 1 and 0.5 if and only if its degree exponent is between 2 and 2.5. We further show that for any power law network with a degree exponent greater than 2.5, there always exists an exponential network such that both networks have the same heterogeneity index. This may help to explain why 2.5 is a critical degree exponent for some dynamic behaviors on power law networks.     

Cumulative Laws, Team Assembling Mechanisms Determining Network Structure

A number of researching works have shed light on the field of complex networks recently. We investigate a wide range of real-world networks and find several interesting phenomena. Firstly, almost all of these networks evolve by overlapping new small graphs on former networks. Secondly, not only the degree sequence of the mature network follows a power-law distribution, but also the distribution of the cumulative occurrence times during the growing process are revealed to have a heavy tail. Existing network evolving models do not provide interpretation to these phenomena. We suggest a model based on the team assembling mechanism, which is extracted from the growing processes of real-world networks and requires simple parameters, and produces networks exhibiting these properties observed in the present study and in previous works.     

Local Events and Dynamics on Weighted Complex Networks

We examine the weighted networks grown and evolved by local events, such as the addition of new vertices and links and we show that depending on frequency of the events, a generalized power-law distribution of strength can emerge. Continuum theory is used to predict the scaling function as well as the exponents, which is in good agreement with the numerical simulation results. Depending on event frequency, power-law distributions of degree and weight can also be expected. Probability saturation phenomena for small strength and degree in many real world networks can be reproduced. Particularly, the non-trivial clustering coefficient, assortativity coefficient and degree-strength correlation in our model are all consistent with empirical evidences.     

Local affinity in heterogeneous growing networks

In this paper we present a study of the influence of local affinity in heterogeneous preferential attachment (PA) networks. Heterogeneous PA models are a generalization of the Barabási-Albert model to heterogeneous networks, where the affinity between nodes biases the attachment probability of links. Threshold models are a class of heterogeneous PA models where the affinity between nodes is inversely related to the distance between their states. We propose a generalization of threshold models where network nodes have individual affinity functions, which are then combined to yield the affinity of each potential interaction. We analyze the influence of the affinity functions in the topological properties averaged over a network ensemble. The network topology is evaluated through the distributions of connectivity degrees, clustering coefficients and geodesic distances. We show that the relaxation of the criterion of a single global affinity still leads to a reasonable power-law scaling in the connectivity and clustering distributions under a wide spectrum of assumptions. We also show that the richer behavior of the model often exhibits a better agreement with the empirical observations on real networks.     

Statistical properties of world investment networks

We have performed a detailed investigation on the world investment networks constructed from the Coordinated Portfolio Investment Survey (CPIS) data of the International Monetary Fund, ranging from 2001 to 2006. The distributions of degrees and node strengths are scale-free. The weight distributions can be well modeled by the Weibull distribution. The maximum flow spanning trees of the world investment networks possess two universal allometric scaling relations, independent of time and the investment type. The topological scaling exponent is 1.17±0.02 and the flow scaling exponent is 1.03±0.01.     

Complex network structure of musical compositions: Algorithmic generation of appealing music

In this paper we construct networks for music and attempt to compose music artificially. Networks are constructed with nodes and edges corresponding to musical notes and their co-occurring connections. We analyze classical music from Bach, Mozart, Chopin, as well as other types of music such as Chinese pop music. We observe remarkably similar properties in all networks constructed from the selected compositions. We conjecture that preserving the universal network properties is a necessary step in artificial composition of music. Power-law exponents of node degree, node strength and/or edge weight distributions, mean degrees, clustering coefficients, mean geodesic distances, etc. are reported. With the network constructed, music can be composed artificially using a controlled random walk algorithm, which begins with a randomly chosen note and selects the subsequent notes according to a simple set of rules that compares the weights of the edges, weights of the nodes, and/or the degrees of nodes. By generating a large number of compositions, we find that this algorithm generates music which has the necessary qualities to be subjectively judged as appealing.     

Networks that optimize a trade-off between efficiency and dynamical resilience

In this Letter we study networks that have been optimized to realize a trade-off between communication efficiency and dynamical resilience. While the first is related to the average shortest pathlength, we argue that the second can be measured by the largest eigenvalue of the adjacency matrix of the network. Best efficiency is realized in star-like configurations, while enhanced resilience is related to the avoidance of short loops and degree homogeneity. Thus crucially, very efficient networks are not resilient while very resilient networks lack in efficiency. Networks that realize a trade-off between both limiting cases exhibit core-periphery structures, where the average degree of core nodes decreases but core size increases as the weight is gradually shifted from a strong requirement for efficiency and limited resilience towards a smaller requirement for efficiency and a strong demand for resilience. We argue that both, efficiency and resilience are important requirements for network design and highlight how networks can be constructed that allow for both.     

Cascading Failures of Complex Networks Based on Two-Step Degree

We propose a new concept, two-step degree. Defining it as the capacity of a node of complex networks, we establish a novel capacity-load model of cascading failures of complex networks where the capacity of nodes decreases during the process of cascading failures. For scale-free networks, we find that the average two-step degree increases with the increase of the heterogeneity of the degree distribution, showing that the average two- step degree can be used for measuring the heterogeneity of the degree distribution of complex networks. In addition, under the condition that the average degree of a node is given, we can design a scale-free network with the optimal robustness to random failures by maximizing the average two-step degree.     

Network Entropy Based on Topology Configuration and Its Computation to Random Networks

A definition of network entropy is presented, and as an example, the relationship between the value of network entropy of ER network model and the connect probability p as well as the total nodes N is discussed. The theoretical result and the simulation result based on the network entropy of the ER network are in agreement well with each other. The result indicated that different from the other network entropy reported before, the network entropy defined here has an obvious difference from different type of random networks or networks having different total nodes. Thus, this network entropy may portray the characters of complex networks better. It is also pointed out that, with the aid of network entropy defined, the concept of equilibrium networks and the concept of non-equilibrium networks may be introduced, and a quantitative measurement to describe the deviation to equilibrium state of a complex network is carried out.     

Topological properties of stock networks based on minimal spanning tree and random matrix theory in financial time series

We investigated the topological properties of stock networks constructed by a minimal spanning tree. We compared the original stock network with the estimated network; the original network is obtained by the actual stock returns, while the estimated network is the correlation matrix created by random matrix theory. We found that the consistency between the two networks increases as more eigenvalues are considered. In addition, we suggested that the largest eigenvalue has a significant influence on the formation of stock networks.     

Robustness of Complex Networks under Attack and Repair

To study the robustness of complex networks under attack and repair, we introduce a repair model of complex networks. Based on the model, we introduce two new quantities, i.e. attack fraction fa and the maximum degree of the nodes that have never been attacked ~Ka, to study analytically the critical attack fraction and the relative size of the giant component of complex networks under attack and repair, using the method of generating function. We show analytically and numerically that the repair strategy significantly enhances the robustness of the scale-free network and the effect of robustness improvement is better for the scale-free networks with a smaller degree exponent. We discuss the application of our theory in relation to the
understanding of robustness of complex networks with reparability.     

Influence of different initial distributions on robust cooperation in scale-free networks: A comparative study

We study the evolutionary Prisoner's dilemma game on scale-free networks, focusing on the influence of different initial distributions for cooperators and defectors on the evolution of cooperation. To address this issue, we consider three types of initial distributions for defectors: uniform distribution at random, occupying the most connected nodes, and occupying the lowest-degree nodes, respectively. It is shown that initial configurations for defectors can crucially influence the cooperation level and the evolution speed of cooperation. Interestingly, the situation where defectors initially occupy the lowest-degree vertices can exhibit the most robust cooperation, compared with two other distributions. That is, the cooperation level is least affected by the initial percentage of defectors. Moreover, in this situation, the whole system evolves fastest to the prevalent cooperation. Besides, we obtain the critical values of initial frequency of defectors above which the extinction of cooperators occurs for the respective initial distributions. Our results might be helpful in explaining the maintenance of high cooperation in scale-free networks.     

Effect of Eliminating Edges on Robustness of Scale-Free Networks under Intentional Attack

We study the robustness of complex networks under edge elimination. We propose three different edge elimination strategies and investigate their effects on the robustness of scale-free networks under intentional attack. We show that deleting a proper fraction of edges connecting hub nodes and hub nodes can enhance the robustness of scale-free networks under intentional attack.     

The complexity of Chinese syntactic dependency networks

This paper proposes how to build a syntactic network based on syntactic theory and presents some statistical properties of Chinese syntactic dependency networks based on two Chinese treebanks with different genres. The results show that the two syntactic networks are small-world networks, and their degree distributions obey a power law. The finding, that the two syntactic networks have the same diameter and different average degrees, path lengths, clustering coefficients and power exponents, can be seen as an indicator that complexity theory can work as a means of stylistic study. The paper links the degree of a vertex with a valency of a word, the small world with the minimized average distance of a language, that reinforces the explanations of the findings from linguistics.     

Comparison of co-occurrence networks of the Chinese and English languages

Co-occurrence networks of Chinese characters and words, and of English words, are constructed from collections of Chinese and English articles, respectively. Four types of collections are considered, namely, essays, novels, popular science articles, and news reports. Statistical parameters of the networks are studied, including diameter, average degree, degree distribution, clustering coefficient, average shortest path length, as well as the number of connected subnetworks. It is found that the character and word networks of each type of article in the Chinese language, and the word network of each type of article in the English language all exhibit scale-free and small-world features. The statistical parameters of these co-occurrence networks are compared within the same language and across the two languages. This study reveals some commonalities and differences between Chinese and English languages, and among the four types of articles in each language from a complex network perspective. In particular, it is shown that expressions in English are briefer than those in Chinese in a certain sense.