The association between miRNA and disease has attracted more and more attention.Until now,existing methods for identifying miRNA related disease mainly rely on top-ranked association model,which may not provide a full...The association between miRNA and disease has attracted more and more attention.Until now,existing methods for identifying miRNA related disease mainly rely on top-ranked association model,which may not provide a full landscape of association between miRNA and disease.Hence there is strong need of new computational method to identify the associations from miRNA group view.In this paper,we proposed a framework,MDA-TOEPGA,to identify miRNAdisease association based on two-objective evolutionary programming genetic algorithm,which identifies latent miRNAdisease associations from the view of functional module.To understand the miRNA functional module in diseases,the case study is presented.We have been compared MDA-TOEPGA with several state-of-the-art functional module algorithm.Experimental results showed that our method cannot only outperform classical algorithms,such as K-means,IK-means,MCODE,HC-PIN,and ClusterONE,but can also achieve an ideal overall performance in terms of a composite score consisting of f1,Sensitivity,and Accuracy.Altogether,our study showed that MDA-TOEPGA is a promising method to investigate miRNA-disease association from the landscapes of functional module.展开更多
With an aim to the fact that the K-means clustering algorithm usually ends in local optimization and is hard to harvest global optimization, a new web clustering method is presented based on the chaotic social evoluti...With an aim to the fact that the K-means clustering algorithm usually ends in local optimization and is hard to harvest global optimization, a new web clustering method is presented based on the chaotic social evolutionary programming （CSEP） algorithm. This method brings up the manner of that a cognitive agent inherits a paradigm in clustering to enable the cognitive agent to acquire a chaotic mutation operator in the betrayal. As proven in the experiment, this method can not only effectively increase web clustering efficiency, but it can also practically improve the precision of web clustering.展开更多
In this paper, we focus on a class of nonlinear bilevel programming problems where the follower’s objective is a function of the linear expression of all variables, and the follower’s constraint functions are convex...In this paper, we focus on a class of nonlinear bilevel programming problems where the follower’s objective is a function of the linear expression of all variables, and the follower’s constraint functions are convex with respect to the follower’s variables. First, based on the features of the follower’s problem, we give a new decomposition scheme by which the follower’s optimal solution can be obtained easily. Then, to solve efficiently this class of problems by using evolutionary algorithm, novel evolutionary operators are designed by considering the best individuals and the diversity of individuals in the populations. Finally, based on these techniques, a new evolutionary algorithm is proposed. The numerical results on 20 test problems illustrate that the proposed algorithm is efficient and stable.展开更多
Steady-state non-dominated sorting genetic algorithm (SNSGA), a new form of multi-objective genetic algorithm, is implemented by combining the steady-state idea in steady-state genetic algorithms (SSGA) and the fitnes...Steady-state non-dominated sorting genetic algorithm (SNSGA), a new form of multi-objective genetic algorithm, is implemented by combining the steady-state idea in steady-state genetic algorithms (SSGA) and the fitness assignment strategy of non-dominated sorting genetic algorithm (NSGA). The fitness assignment strategy is improved and a new self-adjustment scheme of is proposed. This algorithm is proved to be very efficient both computationally and in terms of the quality of the Pareto fronts produced with five test problems including GA difficult problem and GA deceptive one. Finally, SNSGA is introduced to solve multi-objective mixed integer linear programming (MILP) and mixed integer non-linear programming (MINLP) problems in process synthesis.展开更多
Radial Basis Function Neural Network(RBFNN)ensembles have long suffered from non-efficient training,where incorrect parameter settings can be computationally disastrous.This paper examines different evolutionary algor...Radial Basis Function Neural Network(RBFNN)ensembles have long suffered from non-efficient training,where incorrect parameter settings can be computationally disastrous.This paper examines different evolutionary algorithms for training the Symbolic Radial Basis Function Neural Network(SRBFNN)through the behavior’s integration of satisfiability programming.Inspired by evolutionary algorithms,which can iteratively find the nearoptimal solution,different Evolutionary Algorithms(EAs)were designed to optimize the producer output weight of the SRBFNN that corresponds to the embedded logic programming 2Satisfiability representation(SRBFNN-2SAT).The SRBFNN’s objective function that corresponds to Satisfiability logic programming can be minimized by different algorithms,including Genetic Algorithm(GA),Evolution Strategy Algorithm(ES),Differential Evolution Algorithm(DE),and Evolutionary Programming Algorithm(EP).Each of these methods is presented in the steps in the flowchart form which can be used for its straightforward implementation in any programming language.With the use of SRBFNN-2SAT,a training method based on these algorithms has been presented,then training has been compared among algorithms,which were applied in Microsoft Visual C++software using multiple metrics of performance,including Mean Absolute Relative Error(MARE),Root Mean Square Error(RMSE),Mean Absolute Percentage Error(MAPE),Mean Bias Error(MBE),Systematic Error(SD),Schwarz Bayesian Criterion(SBC),and Central Process Unit time(CPU time).Based on the results,the EP algorithm achieved a higher training rate and simple structure compared with the rest of the algorithms.It has been confirmed that the EP algorithm is quite effective in training and obtaining the best output weight,accompanied by the slightest iteration error,which minimizes the objective function of SRBFNN-2SAT.展开更多
In this paper, based on the following theoretical framework: Evolutionary Algorithms + Program Structures = Automatic Programming , some results on complexity of automatic programming for function modeling is given, w...In this paper, based on the following theoretical framework: Evolutionary Algorithms + Program Structures = Automatic Programming , some results on complexity of automatic programming for function modeling is given, which show that the complexity of automatic programming is an exponential function of the problem dimension N , the size of operator set ｜F｜ and the height of the program parse tree H . Following this results, the difficulties of automatic programming are discussed. Some function models discovered automatically from database by evolutionary modeling method are given, too.展开更多
为提高传统GEP算法的全局搜索能力,提出一种基于模糊控制的多细胞基因表达式编程算法(multicellular GEP algorithm based on fuzzy control,MGEP-FC)。通过构建模糊隶属函数,对算法的交叉率、变异率和实数集变异率的大小进行描述,根据...为提高传统GEP算法的全局搜索能力,提出一种基于模糊控制的多细胞基因表达式编程算法(multicellular GEP algorithm based on fuzzy control,MGEP-FC)。通过构建模糊隶属函数,对算法的交叉率、变异率和实数集变异率的大小进行描述,根据种群中个体适应度值的集中和分散程度,动态调整遗传操作的交叉率、变异率和实数集变异率。为使种群的多样性在迭代过程中得到延续,设计一种遗传操作方案,将产生的新个体与父代种群结合构建临时种群,临时种群和子代种群的多样性均得到优化。12个Benchmark的函数寻优实验结果表明,该算法在稳定性、全局收敛能力和寻优速度等方面都得到了显著提升。展开更多
Evolutionary computational methods have adopted attributes of natural selection and evolution to solve problems in computer science, engineering, and other fields. The method is growing in use in zoology and ecology. ...Evolutionary computational methods have adopted attributes of natural selection and evolution to solve problems in computer science, engineering, and other fields. The method is growing in use in zoology and ecology. Evolutionary principles may be merged with an agent-based modeling perspective to have individual animals or other agents compete. Four main categories are discussed： genetic algorithms, evolutionary programming, genetic programming, and evolutionary strategies. In evolutionary computation, a population is represented in a way that allows for an objective function to be assessed that is relevant to the problem of interest. The poorest performing members are removed from the population, and remaining members reproduce and may be mutated. The fitness of the members is again assessed, and the cycle continues until a stopping condition is met. Case studies include optimizing： egg shape given different clutch sizes, mate selection, migration of wildebeest, birds, and elk, vulture foraging behavior, algal bloom prediction, and species richness given energy constraints. Other case studies simulate the evolution of species and a means to project shifts in species ranges in response to a changing climate that includes competition and phenotypic plasticity. This introduction concludes by citing other uses of evolutionary computation and a review of the flexibility of the methods. For example, representing species＇ niche spaces subject to selective pressure allows studies on cladistics, the taxon cycle, neutral versus niche paradigms, fundamental versus realized niches, community structure and order of colonization, invasiveness, and responses to a changing climate.展开更多
基金This work was supported in part by the National Natural Science Foundation of China under Grants 61873089,62032007the Key Project of the Education Department of Hunan Province under Grant 20A087the Innovation Platform Open Fund Project of Hunan Provincial Education Department under Grant 20K025.
文摘The association between miRNA and disease has attracted more and more attention.Until now,existing methods for identifying miRNA related disease mainly rely on top-ranked association model,which may not provide a full landscape of association between miRNA and disease.Hence there is strong need of new computational method to identify the associations from miRNA group view.In this paper,we proposed a framework,MDA-TOEPGA,to identify miRNAdisease association based on two-objective evolutionary programming genetic algorithm,which identifies latent miRNAdisease associations from the view of functional module.To understand the miRNA functional module in diseases,the case study is presented.We have been compared MDA-TOEPGA with several state-of-the-art functional module algorithm.Experimental results showed that our method cannot only outperform classical algorithms,such as K-means,IK-means,MCODE,HC-PIN,and ClusterONE,but can also achieve an ideal overall performance in terms of a composite score consisting of f1,Sensitivity,and Accuracy.Altogether,our study showed that MDA-TOEPGA is a promising method to investigate miRNA-disease association from the landscapes of functional module.
文摘With an aim to the fact that the K-means clustering algorithm usually ends in local optimization and is hard to harvest global optimization, a new web clustering method is presented based on the chaotic social evolutionary programming （CSEP） algorithm. This method brings up the manner of that a cognitive agent inherits a paradigm in clustering to enable the cognitive agent to acquire a chaotic mutation operator in the betrayal. As proven in the experiment, this method can not only effectively increase web clustering efficiency, but it can also practically improve the precision of web clustering.
文摘In this paper, we focus on a class of nonlinear bilevel programming problems where the follower’s objective is a function of the linear expression of all variables, and the follower’s constraint functions are convex with respect to the follower’s variables. First, based on the features of the follower’s problem, we give a new decomposition scheme by which the follower’s optimal solution can be obtained easily. Then, to solve efficiently this class of problems by using evolutionary algorithm, novel evolutionary operators are designed by considering the best individuals and the diversity of individuals in the populations. Finally, based on these techniques, a new evolutionary algorithm is proposed. The numerical results on 20 test problems illustrate that the proposed algorithm is efficient and stable.
文摘Steady-state non-dominated sorting genetic algorithm (SNSGA), a new form of multi-objective genetic algorithm, is implemented by combining the steady-state idea in steady-state genetic algorithms (SSGA) and the fitness assignment strategy of non-dominated sorting genetic algorithm (NSGA). The fitness assignment strategy is improved and a new self-adjustment scheme of is proposed. This algorithm is proved to be very efficient both computationally and in terms of the quality of the Pareto fronts produced with five test problems including GA difficult problem and GA deceptive one. Finally, SNSGA is introduced to solve multi-objective mixed integer linear programming (MILP) and mixed integer non-linear programming (MINLP) problems in process synthesis.
基金This work is supported by Ministry of Higher Education(MOHE)through Fundamental Research Grant Scheme(FRGS)(FRGS/1/2020/STG06/UTHM/03/7).
文摘Radial Basis Function Neural Network(RBFNN)ensembles have long suffered from non-efficient training,where incorrect parameter settings can be computationally disastrous.This paper examines different evolutionary algorithms for training the Symbolic Radial Basis Function Neural Network(SRBFNN)through the behavior’s integration of satisfiability programming.Inspired by evolutionary algorithms,which can iteratively find the nearoptimal solution,different Evolutionary Algorithms(EAs)were designed to optimize the producer output weight of the SRBFNN that corresponds to the embedded logic programming 2Satisfiability representation(SRBFNN-2SAT).The SRBFNN’s objective function that corresponds to Satisfiability logic programming can be minimized by different algorithms,including Genetic Algorithm(GA),Evolution Strategy Algorithm(ES),Differential Evolution Algorithm(DE),and Evolutionary Programming Algorithm(EP).Each of these methods is presented in the steps in the flowchart form which can be used for its straightforward implementation in any programming language.With the use of SRBFNN-2SAT,a training method based on these algorithms has been presented,then training has been compared among algorithms,which were applied in Microsoft Visual C++software using multiple metrics of performance,including Mean Absolute Relative Error(MARE),Root Mean Square Error(RMSE),Mean Absolute Percentage Error(MAPE),Mean Bias Error(MBE),Systematic Error(SD),Schwarz Bayesian Criterion(SBC),and Central Process Unit time(CPU time).Based on the results,the EP algorithm achieved a higher training rate and simple structure compared with the rest of the algorithms.It has been confirmed that the EP algorithm is quite effective in training and obtaining the best output weight,accompanied by the slightest iteration error,which minimizes the objective function of SRBFNN-2SAT.
基金Supported by National Nature Science Foundation of China(6 0 0 730 4370 0 710 42 )
文摘In this paper, based on the following theoretical framework: Evolutionary Algorithms + Program Structures = Automatic Programming , some results on complexity of automatic programming for function modeling is given, which show that the complexity of automatic programming is an exponential function of the problem dimension N , the size of operator set ｜F｜ and the height of the program parse tree H . Following this results, the difficulties of automatic programming are discussed. Some function models discovered automatically from database by evolutionary modeling method are given, too.
文摘为提高传统GEP算法的全局搜索能力,提出一种基于模糊控制的多细胞基因表达式编程算法(multicellular GEP algorithm based on fuzzy control,MGEP-FC)。通过构建模糊隶属函数,对算法的交叉率、变异率和实数集变异率的大小进行描述,根据种群中个体适应度值的集中和分散程度,动态调整遗传操作的交叉率、变异率和实数集变异率。为使种群的多样性在迭代过程中得到延续,设计一种遗传操作方案,将产生的新个体与父代种群结合构建临时种群,临时种群和子代种群的多样性均得到优化。12个Benchmark的函数寻优实验结果表明,该算法在稳定性、全局收敛能力和寻优速度等方面都得到了显著提升。
基金Funding and support was provided by the National Science Foundation （Macrobiology Grant 1241583）. My thanks to the vip Editor, G. Wang, for his assistance and thanks to 2 anonymous reviewers, whose comments helped improve the manuscript.
文摘Evolutionary computational methods have adopted attributes of natural selection and evolution to solve problems in computer science, engineering, and other fields. The method is growing in use in zoology and ecology. Evolutionary principles may be merged with an agent-based modeling perspective to have individual animals or other agents compete. Four main categories are discussed： genetic algorithms, evolutionary programming, genetic programming, and evolutionary strategies. In evolutionary computation, a population is represented in a way that allows for an objective function to be assessed that is relevant to the problem of interest. The poorest performing members are removed from the population, and remaining members reproduce and may be mutated. The fitness of the members is again assessed, and the cycle continues until a stopping condition is met. Case studies include optimizing： egg shape given different clutch sizes, mate selection, migration of wildebeest, birds, and elk, vulture foraging behavior, algal bloom prediction, and species richness given energy constraints. Other case studies simulate the evolution of species and a means to project shifts in species ranges in response to a changing climate that includes competition and phenotypic plasticity. This introduction concludes by citing other uses of evolutionary computation and a review of the flexibility of the methods. For example, representing species＇ niche spaces subject to selective pressure allows studies on cladistics, the taxon cycle, neutral versus niche paradigms, fundamental versus realized niches, community structure and order of colonization, invasiveness, and responses to a changing climate.
