A Generalized Markov Sampler

A recent development of the Markov chain Monte Carlo (MCMC) technique is the emergence of MCMC samplers that allow transitions between different models. Such samplers make possible a range of computational tasks involving models, including model selection, model evaluation, model averaging and hypothesis testing. An example of this type of sampler is the reversible jump MCMC sampler, which is a generalization of the Metropolis–Hastings algorithm. Here, we present a new MCMC sampler of this type. The new sampler is a generalization of the Gibbs sampler, but somewhat surprisingly, it also turns out to encompass as particular cases all of the well-known MCMC samplers, including those of Metropolis, Barker, and Hastings. Moreover, the new sampler generalizes the reversible jump MCMC. It therefore appears to be a very general framework for MCMC sampling. This paper describes the new sampler and illustrates its use in three applications in Computational Biology, specifically determination of consensus sequences, phylogenetic inference and delineation of isochores via multiple change-point analysis.     

基于专家动态权重的群组AHP交互式决策方法

为了能在群组决策中得到更为客观和准确的决策结果,在把专家权重划分为静态权重和动态权重的基础上,研究了在交互式决策中专家动态权重的确定方法,给出了共识度的一个定义.在此基础上,研究了群组AHP交互式决策方法中的一致性和相容性检验,给出了基于专家动态权重的群组AHP交互式决策方法流程,最后用一个示例说明了该方法的应用步骤.     

Sampling Consensus of 2nd-Order Multi-Agent Systems Based on Time-Varying Topology北大核心CSCD

基于速度一致位移差保持不变的一致性概念,研究了二阶多智能体系统在时变拓扑下的采样一致性问题。首先,引入虚拟领导者,将具有时变拓扑结构的多智能体系统的采样一致性问题转换为误差系统的采样控制稳定性问题。其次,通过预估采样误差,研究采样误差对系统达到一致性的影响。最后,应用Lyapunov稳定性理论,分析所构造的误差系统的稳定性,并给出该误差系统最终稳定的充分条件。数值仿真结果验证了理论分析的有效性和正确性。     

基于邻域贡献权值细化的圆心亚像素定位算法

针对传统的圆心算法过程复杂、定位精度受初始边缘提取效果影响较大等问题,提出了一种基于邻域贡献权值细化的圆心亚像素定位算法。首先引入邻域贡献权值系数,改进传统非极大值抑制法,细化边缘;然后在边缘点的梯度方向对灰度值进行高斯拟合,确定亚像素边缘位置;最后针对边缘突变点提出了基于随机抽样一致的最小二乘法来拟合圆心。实验结果表明,该算法具有较好的精度和稳定性,圆心的提取精度可以达到0.1个像素。     

Stability analysis of a class of uncertain switched systems on time scale using Lyapunov functions

This paper deals with the stability analysis of a class of uncertain switched systems on non-uniform time domains. The considered class consists of dynamical systems which commute between an uncertain continuous-time subsystem and an uncertain discrete-time subsystem during a certain period of time. The theory of dynamic equations on time scale is used to study the stability of these systems on non-uniform time domains formed by a union of disjoint intervals with variable length and variable gap. Using the concept of common Lyapunov function, sufficient conditions are derived to guarantee the asymptotic stability of this class of systems on time scale with bounded graininess function. The proposed scheme is used to study the leader–follower consensus problem under intermittent information transmissions.     

Dynamic output feedback consensus of continuous‐time networked multiagent systems

This article addresses the dynamic output feedback consensus problem of continuous‐time networked multiagent systems. Both a fixed topology and Markovian switching topologies are considered. The consensus algorithms are on the base of the output information of each agent's itself and its neighbors. Some sufficient conditions for consensus of multiagent systems are obtained in forms of bilinear matrix inequalities. The algorithm based on the homotopy continuation method is given to compute the feasible controller gains. Numerical simulations are given to show the effectiveness of the proposed results. © 2014 Wiley Periodicals, Inc. Complexity 20: 35–42, 2015     

Combining Different Docking Engines and Consensus Strategies to Design and Validate Optimized Virtual Screening Protocols for the SARS-CoV-2 3CL Protease

The 3CL-Protease appears to be a very promising medicinal target to develop anti-SARS-CoV-2 agents. The availability of resolved structures allows structure-based computational approaches to be carried out even though the lack of known inhibitors prevents a proper validation of the performed simulations. The innovative idea of the study is to exploit known inhibitors of SARS-CoV 3CL-Pro as a training set to perform and validate multiple virtual screening campaigns. Docking simulations using four different programs (Fred, Glide, LiGen, and PLANTS) were performed investigating the role of both multiple binding modes (by binding space) and multiple isomers/states (by developing the corresponding isomeric space). The computed docking scores were used to develop consensus models, which allow an in-depth comparison of the resulting performances. On average, the reached performances revealed the different sensitivity to isomeric differences and multiple binding modes between the four docking engines. In detail, Glide and LiGen are the tools that best benefit from isomeric and binding space, respectively, while Fred is the most insensitive program. The obtained results emphasize the fruitful role of combining various docking tools to optimize the predictive performances. Taken together, the performed simulations allowed the rational development of highly performing virtual screening workflows, which could be further optimized by considering different 3CL-Pro structures and, more importantly, by including true SARS-CoV-2 3CL-Pro inhibitors (as learning set) when available.     

Structural and immunogenicity analysis of reconstructed ancestral and consensus P48/45 for cross-species anti malaria transmission-blocking vaccine

The development of the anti-malaria vaccine holds a promising future in malaria control. One of the anti-malaria vaccine strategies known as the transmission-blocking vaccine (TBV) is to inhibit the parasite transmission between humans and mosquitoes by targeting the parasite gametocyte. Previously, we found that P48/45 included in the 6-Cysteine protein family shared by Plasmodium sp. We also detected vaccine properties possessed by all human-infecting Plasmodium and could be used as a cross-species anti-malaria vaccine. In this study, we investigated the efficacy of P48/45 through the ancestral and consensus reconstruction approach. P48/45 phylogenetic and time tree analysis was done by RAXML and BEAST2. GRASP server and Ugene software were used to reconstruct ancestral and consensus sequences, respectively. The protein structural prediction was made by using a psipred and Rosetta program. Each protein characteristic of P48/45 was analyzed by assessing hydrophobicity and Post-Translational Modification sites. Meanwhile, the Epitope sequence for B-cell, T-cell, and HLA was determined using an immunoinformatics approach. Lastly, molecular docking simulation was done to determine native binding interactions of P48/45-P230. The result showed a distinct protein characteristic of ancestral and consensus sequences. The immunogenicity analysis revealed the number of epitopes in the ancestral sequence is greater than the consensus sequence. The study also found a conserved epitope located in the binding site and consists of specific Post-Translational Modification sites. Hence, our research provides detailed insight into ancestral and consensus P48/45 efficacy for the cross-species anti-malaria vaccine.