蛋白质相互作用网络特征的理论再现

无标度性、小世界性、功能模块结构及度负关联性是大量生物网络共同的特征. 为了理解生物网络无标度性、小世界性和度负关联性的形成机制, 研究者已经提出了各种各样基于复制和变异的网络增长模型. 在本文中,我们从生物学的角度通过引入偏爱小复制原则及变异和非均匀的异源二聚作用构建了一个简单的蛋白质相互作用网络演化模型.数值模拟结果表明,该演化模型几乎可以再现现在实测结果所公认的蛋白质相互作用网络的性质：无标度性、小世界性、度负关联性和功能模块结构. 我们的演化模型对理解蛋白质相互作用网络演化过程中的可能机制提供了一定的帮助. 关键词： 蛋白质相互作用网络 偏爱小 非均匀的异源二聚作用 功能模块结构     

Error and attack tolerance of synchronization in Hindmarsh–Rose neural networks with community structure

Synchronization is one of the most important features observed in large-scale complex networks of interacting dynamical systems. As is well known, there is a close relation between the network topology and the network synchronizability. Using the coupled Hindmarsh–Rose neurons with community structure as a model network, in this paper we explore how failures of the nodes due to random errors or intentional attacks affect the synchronizability of community networks. The intentional attacks are realized by removing a fraction of the nodes with high values in some centrality measure such as the centralities of degree, eigenvector, betweenness and closeness. According to the master stability function method, we employ the algebraic connectivity of the considered community network as an indicator to examine the network synchronizability. Numerical evidences show that the node failure strategy based on the betweenness centrality has the most influence on the synchronizability of community networks. With this node failure strategy for a given network with a fixed number of communities, we find that the larger the degree of communities, the worse the network synchronizability; however, for a given network with a fixed degree of communities, we observe that the more the number of communities, the better the network synchronizability.     

Detection of influential nodes with multi-scale information

The identification of influential nodes in complex networks is one of the most exciting topics in network science. The latest work successfully compares each node using local connectivity and weak tie theory from a new perspective. We study the structural properties of networks in depth and extend this successful node evaluation from single-scale to multi-scale. In particular, one novel position parameter based on node transmission efficiency is proposed, which mainly depends on the shortest distances from target nodes to high-degree nodes. In this regard, the novel multi-scale information importance (MSII) method is proposed to better identify the crucial nodes by combining the network's local connectivity and global position information. In simulation comparisons, five state-of-the-art algorithms, i.e. the neighbor nodes degree algorithm (NND), betweenness centrality, closeness centrality, Katz centrality and the k-shell decomposition method, are selected to compare with our MSII. The results demonstrate that our method obtains superior performance in terms of robustness and spreading propagation for both real-world and artificial networks.     

Computing Influential Nodes Using the Nearest Neighborhood Trust Value and PageRank in Complex Networks

Computing influential nodes gets a lot of attention from many researchers for information spreading in complex networks. It has vast applications, such as viral marketing, social leader creation, rumor control, and opinion monitoring. The information-spreading ability of influential nodes is greater compared with other nodes in the network. Several researchers proposed centrality measures to compute the influential nodes in a complex network, such as degree, betweenness, closeness, semi-local centralities, and PageRank. These centrality methods are defined based on the local and/or global information of nodes in the network. However, due to their high time complexity, centrality measures based on the global information of nodes have become unsuitable for large-scale networks. Very few centrality measures exist that are based on the attributes between nodes and the structure of the network. We propose the nearest neighborhood trust PageRank (NTPR) based on the structural attributes of neighbors and nearest neighbors of nodes. We define the measure based on the degree ratio, the similarity between nodes, the trust values of neighbors, and the nearest neighbors. We computed the influential nodes in various real-world networks using the proposed centrality method. We found the maximum influence by using influential nodes with SIR and independent cascade methods. We also compare the maximum influence of our centrality measure with the existing basic centrality measures.     

相依网络上基于相连边的择优恢复算法

如何有效地应对和控制故障在相依网络上的级联扩散避免系统发生结构性破碎,对于相依网络抗毁性研究具有十分重要的理论价值和现实意义.最新的研究提出一种基于相依网络的恢复模型,该模型的基本思想是通过定义共同边界节点,在每轮恢复阶段找出符合条件的共同边界节点并以一定比例实施恢复.当前的做法是按照随机概率进行选择.这种方法虽然简单直观,却没有考虑现实世界中资源成本的有限性和择优恢复的必然性.为此,针对相依网络的恢复模型,本文利用共同边界节点在极大连通网络内外的连接边数计算边界节点的重要性,提出一种基于相连边的择优恢复算法(preferential recovery based on connectivity link,PRCL)算法.利用渗流理论的随机故障模型,通过ER随机网络和无标度网络构建的不同结构相依网络上的级联仿真结果表明,相比随机方法和度数优先以及局域影响力优先的恢复算法,PRCL算法具备恢复能力强、起效时间早且迭代步数少的优势,能够更有效、更及时地遏制故障在网络间的级联扩散,极大地提高了相依网络遭受随机故障时的恢复能力.     

基于区域密度曲线识别网络上的多影响力节点

复杂网络多影响力节点的识别可以帮助理解网络的结构和功能,具有重要的理论意义和应用价值.本文提出一种基于网络区域密度曲线的多影响力节点的识别方法.应用两种不同的传播模型,在不同网络上与其他中心性指标进行了比较.结果表明,基于区域密度曲线的识别方法能够更好地识别网络中的多影响力节点,选中的影响力节点之间的分布较为分散,自身也比较重要.本文所提方法是基于网络的局部信息,计算的时间复杂度较低.     

Identifying influential nodes in complex networks

Identifying influential nodes that lead to faster and wider spreading in complex networks is of theoretical and practical significance. The degree centrality method is very simple but of little relevance. Global metrics such as betweenness centrality and closeness centrality can better identify influential nodes, but are incapable to be applied in large-scale networks due to the computational complexity. In order to design an effective ranking method, we proposed a semi-local centrality measure as a tradeoff between the low-relevant degree centrality and other time-consuming measures. We use the Susceptible-Infected-Recovered (SIR) model to evaluate the performance by using the spreading rate and the number of infected nodes. Simulations on four real networks show that our method can well identify influential nodes.     

Identifying Important Nodes in Complex Networks Based on Node Propagation Entropy

In recent years, the identification of the essential nodes in complex networks has attracted significant attention because of their theoretical and practical significance in many applications, such as preventing and controlling epidemic diseases and discovering essential proteins. Several importance measures have been proposed from diverse perspectives to identify crucial nodes more accurately. In this paper, we propose a novel importance metric called node propagation entropy, which uses a combination of the clustering coefficients of nodes and the influence of the first- and second-order neighbor numbers on node importance to identify essential nodes from an entropy perspective while considering the local and global information of the network. Furthermore, the susceptible–infected–removed and susceptible–infected–removed–susceptible epidemic models along with the Kendall coefficient are used to reveal the relevant correlations among the various importance measures. The results of experiments conducted on several real networks from different domains show that the proposed metric is more accurate and stable in identifying significant nodes than many existing techniques, including degree centrality, betweenness centrality, closeness centrality, eigenvector centrality, and H-index.     

Target recovery in complex networks

The invulnerability of complex networks is an important issue which has been widely analyzed in different fields. A lot of works have been done to measure and improve the stability of complex networks when being attacked. Recently, how to recover networks after attack was intensively studied. The existing methods are mainly designed to recover the overall functionality of networks, yet in many real cases the recovery of important nodes should be given priority, to which we refer target recovery. For example, when the cold wave paralyses the railway networks, target recovery means to repair those stations or railways such that the transport capacity of densely-populated cities can be recovered as fast as possible. In this paper, we first compare the impact of attacks on the whole network and target nodes respectively, and then study the efficiency of traditional recovery methods that are proposed based on global centrality metrics. Furthermore, based on target centrality metrics, we introduce a local betweenness recovery method and we find it has better performance than the traditional methods. We finally propose a hybrid recovery method which includes local betweenness metric and local closeness metric. The performance of the hybrid method is shown to be similar to that of the greedy algorithm.     

节点中心性对复杂网络传播模式的影响分析

在众多的重要节点评估方法研究中,具有较高中心性的节点一直是关注的焦点,许多传播行为的研究也主要围绕高中心性节点展开,因此在一定程度上忽略了低中心性节点对传播行为的影响.本文从传播异构性角度,通过初始感染最大中心性节点和最小中心性节点揭示网络结构异构性对信息传播的影响.实验结果表明,传播过程中存在"链型"和"扇型"两种传播模式,在初始感染比例不断提升的情况下,两种传播模式的相互转换引发传播速率的变化,进一步促使非线性传播规模交叉现象的产生.这一现象说明,在宏观的信息传播过程中,最小中心性节点的影响力不容忽视,尤其在初始感染比例升高时,最小中心性节点比最大中心性节点更具传播优势.     

面向结构洞的复杂网络关键节点排序

复杂网络中的结构洞节点对于信息传播具有重要作用, 现有关键节点排序方法多数没有兼顾结构洞节点和其他类型的关键节点进行排序. 本文根据结构洞理论与关键节点排序相关研究选取了网络约束系数、介数中心性、等级度、效率、网络规模、PageRank值以及聚类系数7个度量指标, 将基于ListNet的排序学习方法引入到复杂网络的关键节点排序问题中, 融合7个度量指标, 构建了一个能够综合评价面向结构洞节点的关键节点排序方法. 采用模拟网络和实际复杂网络进行了大量实验, 人工标准试验结果表明本文排序方法能够综合考虑结构洞节点和核心节点, 关键节点排序与人工排序结果具有较高的一致性. SIR传播模型评估实验结果表明由本文选择TOP-K节点发起的传播能够在较短的传播时间内达到最大的传播范围.     

Identifying influential nodes based on graph signal processing in complex networks

Identifying influential nodes in complex networks is of both theoretical and practical importance. Existing methods identify influential nodes based on their positions in the network and assume that the nodes are homogeneous. However,node heterogeneity(i.e., different attributes such as interest, energy, age, and so on) ubiquitously exists and needs to be taken into consideration. In this paper, we conduct an investigation into node attributes and propose a graph signal processing based centrality(GSPC) method to identify influential nodes considering both the node attributes and the network topology. We first evaluate our GSPC method using two real-world datasets. The results show that our GSPC method effectively identifies influential nodes, which correspond well with the underlying ground truth. This is compatible to the previous eigenvector centrality and principal component centrality methods under circumstances where the nodes are homogeneous. In addition, spreading analysis shows that the GSPC method has a positive effect on the spreading dynamics.     

A Resiliency-Connectivity metric in wireless sensor networks with key predistribution schemes and node compromise attacks

Applications for wireless sensor networks require widespread, highly reliable communications even in the face of adversarial influences. Maintaining connectivity and secure communications between entities are vital networking properties towards ensuring the successful and accurate completion of desired sensing tasks. We examine the required communication range for nodes in a wireless sensor network with respect to several parameters. Network properties such as key predistribution schemes and node compromise attacks are modelled with several network parameters and studied in terms of how they influence global network connectivity. These networks are physically vulnerable to malicious behavior by way of node compromise attacks that may affect global connectivity. We introduce a metric that determines the resilience of a network employing a key predistribution scheme with respect to node compromise attacks. In this work,we provide the first study of global network connectivity and its relationship to node compromise attacks. Existing work considers the relationship between the probability of node compromise and the probability of link compromise and the relationship of the probability of secure link establishment and overall network connectivity for the Erdős network model. Here, we present novel work which combines these two relationships to study the relationship between node compromise attacks and global network connectivity. Our analysis is performed with regard to large-scale networks; however, we provide simulation results for both large-scale and small-scale networks. First, we derive a single expression to determine the required communication radius for wireless sensor networks to include the effects of key predistribution schemes. From this, we derive an expression for determining required communication range after an adversary has compromised a fraction of the nodes in the network. The required communication range represents the resource usage of nodes in a network to cope with key distribution schemes and node compromise attacks. We introduce the Resiliency-Connectivity metric, which measures the resilience of a network in expending its resources to provide global connectivity in adverse situations.     

一种新的网络传播中最有影响力的节点发现方法

在复杂网络的传播模型研究中, 如何发现最具影响力的传播节点在理论和现实应用中都有重大的意义. 目前的研究一般使用节点的度数、紧密度、介数和K-shell等中心化指标来评价影响力, 这种方法虽然简单, 但是由于它们仅利用了节点自身的内部属性, 因而在评价影响力时精确度并不高, 普遍性适用性较弱.为了解决这个问题, 本文提出了KSC (K-shell and community centrality)指标模型. 此模型不但考虑了节点的内部属性, 而且还综合考虑了节点的外部属性, 例如节点所属的社区等. 然后利用SIR (susceptible-infected-recovered)模型对传播过程进行仿真, 实验证明所提出的方法可以更好地发现最具有影响力的节点, 且可适用于各种复杂网络. 本文为这项具有挑战性研究提供了新的思想和方法. 关键词： 复杂网络 最具影响力的节点 社区划分 中性化测量     

Nodes and layers PageRank centrality for multilayer networks

In this paper, we propose a new centrality algorithm that can simultaneously rank the nodes and layers of multilayer networks, referred to as the MRFNL centrality. The centrality of nodes and layers are obtained by developing a novel iterative algorithm for computing a set of tensor equations. Under some conditions, the existence and uniqueness of this centrality were proven by applying the Brouwer fixed point theorem. Furthermore, the convergence of the proposed iterative algorithm was established. Finally, numerical experiments on a simple multilayer network and two real-world multilayer networks(i.e., Pierre Auger Collaboration and European Air Transportation Networks) are proposed to illustrate the effectiveness of the proposed algorithm and to compare it to other existing centrality measures.     

Networks of noisy oscillators with correlated degree and frequency dispersion

We investigate how correlations between the diversity of the connectivity of networks andthe dynamics at their nodes affect the macroscopic behavior. In particular, we study thesynchronization transition of coupled stochastic phase oscillators that represent the nodedynamics. Crucially in our work, the variability in the number of connections of the nodesis correlated with the width of the frequency distribution of the oscillators. Bynumerical simulations on Erdös-Rényi networks, where the frequencies of the oscillatorsare Gaussian distributed, we make the counterintuitive observation that an increase in thestrength of the correlation is accompanied by an increase in the critical couplingstrength for the onset of synchronization. We further observe that the critical couplingcan solely depend on the average number of connections or even completely lose itsdependence on the network connectivity. Only beyond this state, a weighted mean-fieldapproximation breaks down. If noise is present, the correlations have to be stronger toyield similar observations.     

利用邻域“结构洞”寻找社会网络中最具影响力节点

识别复杂网络中的关键节点对网络结构优化和鲁棒性增强具有十分重要的意义. 经典的关键节点测量方法在一定程度上能够辨识网络中影响力节点, 但存在一定局限性: 局部中心性测量方法仅考虑节点邻居的数目, 忽略了邻居间的拓扑关系, 不能在计算中反映邻居节点间的相互作用; 全局测量方法则由于算法本身的复杂性而不能应用于大规模社会网络的分析, 另外, 经典的关键节点测量方法也没有考虑社会网络特有的社区特征. 为高效、准确地辨识具有社区结构的社会网络中最具影响力节点, 提出了一种基于节点及其邻域结构洞的局部中心性测量方法, 该方法综合考虑了节点的邻居数量及其与邻居间的拓扑结构, 在节点约束系数的计算中同时体现了节点的度属性和“桥接”属性. 利用SIR(易感-感染-免疫)模型在真实社会网络数据上对节点传播能力进行评价后发现, 所提方法可以准确地评价节点的传播能力且具有强的鲁棒性.     

Identifying Influence of Nodes in Complex Networks with Coreness Centrality:Decreasing the Impact of Densely Local Connection

Ranking nodes by their spreading ability has been a fundamental issue related to many real applications,such as information and disease control,In the well-known coreness centrality measure,nodes' influence is ranked only by summing all neighbors' k-shell values while the effect of the topological connections among them on the nodes' spreading ability are ignored.In this work,we propose an improved coreness measure by decreasing the impact of densely local connections.Comparing the results from a series of susceptible-infected-recovered simulations on real networks,we show that our improved method can rank the nodes' spreading ability more accurately than other ranking measures such as k-shell,distance based method,mixed degree decomposition and coreness centrality method.     

基于层间相似性的时序网络节点重要性研究

时序网络可以更加准确地描述节点之间的交互顺序和交互关系.结合多层耦合网络分析法,本文提出了基于节点层间相似性的超邻接矩阵时序网络节点重要性识别方法,与经典的认为所有层间关系为常数不同,层间关系用节点的邻居拓扑重叠系数进行度量.Workspace和Enrons数据集上的结果显示:相比经典的方法,使用该方法得到的Kendall’sτ值在各时间层上的平均提高,最高为17.72%和12.44%,结果表明层间相似性的度量对于时序网络的节点重要性度量具有十分重要的意义.     

PageRank centrality for temporal networks

In this paper, we propose a new centrality measure for ranking the nodes and time layers of temporal networks simultaneously, referred to as the f-PageRank centrality. The f-PageRank values of nodes and time layers in temporal networks are obtained by solving the eigenvector of a multi-homogeneous map. The existence and uniqueness of the proposed centrality measure are also guaranteed by existing results, under some reasonable conditions. The numerical experiments on a synthetic temporal network and two real-world temporal networks (i.e., Email-Eu-core and CollegeMsg temporal networks) show that the proposed centrality outperforms some existing centrality measures.