抗原变异可使得多种致病微生物易于逃避宿主免疫应答。表达在感染红细胞表面的恶性疟原虫红细胞表面蛋白1（PfPMP1）与感染红细胞、内皮细胞、树突状细胞以及胎盘的单个或多个受体作用，在黏附及免疫逃避中起关键的作用。每个单倍体基因组var基因家族编码约60种成员，通过启动转录不同的var基因变异体为抗原变异提供了分子基础。

疟原虫var基因转换速率变化导致抗原变异[英]／Paul H, Robert P, Christodoulou Z, et al//Proc Natl Acad Sci U S A

This article reviews the state-of-the-art in overlapping community detection algorithms, quality measures, and benchmarks. A thorough comparison of different algorithms (a total of fourteen) is provided. In addition to community-level evaluation, we propose a framework for evaluating algorithms' ability to detect overlapping nodes, which helps to assess overdetection and underdetection. After considering community-level detection performance measured by normalized mutual information, the Omega index, and node-level detection performance measured by F-score, we reached the following conclusions. For low overlapping density networks, SLPA, OSLOM, Game, and COPRA offer better performance than the other tested algorithms. For networks with high overlapping density and high overlapping diversity, both SLPA and Game provide relatively stable performance. However, test results also suggest that the detection in such networks is still not yet fully resolved. A common feature observed by various algorithms in real-world networks is the relatively small fraction of overlapping nodes (typically less than 30p), each of which belongs to only 2 or 3 communities.

Overlapping community detection in networks: The state-of-the-art and comparative study

In evolutionary multiobjective optimization, maintaining a good balance between convergence and diversity is particularly crucial to the performance of the evolutionary algorithms (EAs). In addition, it becomes increasingly important to incorporate user preferences because it will be less likely to achieve a representative subset of the Pareto-optimal solutions using a limited population size as the number of objectives increases. This paper proposes a reference vector-guided EA for many-objective optimization. The reference vectors can be used not only to decompose the original multiobjective optimization problem into a number of single-objective subproblems, but also to elucidate user preferences to target a preferred subset of the whole Pareto front (PF). In the proposed algorithm, a scalarization approach, termed angle-penalized distance, is adopted to balance convergence and diversity of the solutions in the high-dimensional objective space. An adaptation strategy is proposed to dynamically adjust the distribution of the reference vectors according to the scales of the objective functions. Our experimental results on a variety of benchmark test problems show that the proposed algorithm is highly competitive in comparison with five state-of-the-art EAs for many-objective optimization. In addition, we show that reference vectors are effective and cost-efficient for preference articulation, which is particularly desirable for many-objective optimization. Furthermore, a reference vector regeneration strategy is proposed for handling irregular PFs. Finally, the proposed algorithm is extended for solving constrained many-objective optimization problems.

A Reference Vector Guided Evolutionary Algorithm for Many-Objective Optimization

The Kuramoto model in complex networks

Recently, MOEA/D multi-objective evolutionary algorithm based on decomposition has achieved great success in the field of evolutionary multi-objective optimization and has attracted a lot of attention. It decomposes a multi-objective optimization problem MOP into a set of scalar subproblems using uniformly distributed aggregation weight vectors and provides an excellent general algorithmic framework of evolutionary multi-objective optimization. Generally, the uniformity of weight vectors in MOEA/D can ensure the diversity of the Pareto optimal solutions, however, it cannot work as well when the target MOP has a complex Pareto front PF; i.e., discontinuous PF or PF with sharp peak or low tail. To remedy this, we propose an improved MOEA/D with adaptive weight vector adjustment MOEA/D-AWA. According to the analysis of the geometric relationship between the weight vectors and the optimal solutions under the Chebyshev decomposition scheme, a new weight vector initialization method and an adaptive weight vector adjustment strategy are introduced in MOEA/D-AWA. The weights are adjusted periodically so that the weights of subproblems can be redistributed adaptively to obtain better uniformity of solutions. Meanwhile, computing efforts devoted to subproblems with duplicate optimal solution can be saved. Moreover, an external elite population is introduced to help adding new subproblems into real sparse regions rather than pseudo sparse regions of the complex PF, that is, discontinuous regions of the PF. MOEA/D-AWA has been compared with four state of the art MOEAs, namely the original MOEA/D, Adaptive-MOEA/D, -MOEA/D, and NSGA-II on 10 widely used test problems, two newly constructed complex problems, and two many-objective problems. Experimental results indicate that MOEA/D-AWA outperforms the benchmark algorithms in terms of the IGD metric, particularly when the PF of the MOP is complex.

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Moea/d with adaptive weight adjustment

A new general complex delayed dynamical network model with nonsymmetric coupling is introduced, and then we investigate its synchronization phenomena. Several synchronization criteria for delay-independent and delay-dependent synchronization are provided which generalize some previous results. The matrix Jordan canonical formalization method is used instead of the matrix diagonalization method, so in our synchronization criteria, the coupling configuration matrix of the network does not required to be diagonalizable and may have complex eigenvalues. Especially, we show clearly that the synchronizability of a delayed dynamical network is not always characterized by the second-largest eigenvalue even though all the eigenvalues of the coupling configuration matrix are real. Furthermore, the effects of time-delay on synchronizability of networks with unidirectional coupling are studied under some typical network structures. The results are illustrated by delayed networks in which each node is a two-dimensional limit cycle oscillator system consisting of a two-cell cellular neural network, numerical simulations show that these networks can realize synchronization with smaller time-delay, and will lose synchronization when the time-delay increase larger than a threshold.

Synchronization in complex delayed dynamical networks with nonsymmetric coupling

We study projective (anticipatory, exact and lag) synchronization of time-delayed chaotic systems in a driven–response complex network (DRCN), where the nodes are not partially linear and the scale factors are different from each other. Two synchronization criteria are presented; the first is easy to satisfy with simple limitation and the second relaxes the previous limitation and can be executed only by adding a simple linear feedback control to every node. As a special case, projective synchronization in a DRCN without time delay is analyzed by using a different method. The corresponding synchronization criterion is given, which can be realized by adopting single-node adaptive control. This paper extends previous work, where the nodes of the DRCN are partially linear, there is limitation of the coupling matrix or the scale factors of the nodes are all equal. Numerical examples are given to demonstrate the effectiveness of the proposed synchronization criteria. Due to the complexity of the different scale factors, we select the chaotic data from the DRCN presented in this paper and apply the data selected in image encryption. Simulation results show that our method is efficient with a large key space, high sensitivity to initial conditions and high speed.

Projective synchronization with different scale factors in a driven–response complex network and its application in image encryption

MOEA/D with opposition-based learning for multiobjective optimization problem

The modular structure of a network is closely related to the dynamics toward clustering. In this paper, a method for community detection is proposed via the clustering dynamics of a network. The initial phases of the nodes in the network are given randomly, and then they evolve according to a set of dedicatedly designed differential equations. The phases of the nodes are naturally separated into several clusters after a period of evolution, and each cluster corresponds to a community in the network. For the networks with overlapping communities, the phases of the overlapping nodes will evolve to the interspace of the two communities. The proposed method is illustrated with applications to both synthetically generated and real-world complex networks.

Jianshe Wu

Papers

Moea/d with adaptive weight adjustment

Synchronization in complex delayed dynamical networks with nonsymmetric coupling

Projective synchronization with different scale factors in a driven–response complex network and its application in image encryption

MOEA/D with opposition-based learning for multiobjective optimization problem

Overlapping community detection via network dynamics.