A generic multi-criterion approach for mutant strain optimization

Motivation: The identification of genetic modifications that can lead to mutant strains that overproduce compounds of industrial interest is a challenging task in Metabolic Engineering. Evolutionary Algorithms and other metaheuristics have provided successful methods for solving the underlying in silico bi-level optimization problems (e.g. to find the best set of gene knockouts) [1]. Although these algorithms perform well in some criteria, they lose sense of the inner multi-objective nature of these problems. Results: In this work, these tasks are viewed as multi-objective optimization problems and algorithms based on multi-objective EAs are proposed. The objectives include maximizing the production of the compound of interest, maximizing biomass and minimizing the number of knockouts. Furthermore, a generalization to integrate multiple-criterion capabilities into single-objective algorithms is proposed and implemented as an ensemble method. This new approach allows taking advantage of the solution space sampling capabilities of some algorithms (e.g. Simulated Annealing), while generating the set of solutions (Pareto-front) according to the multiobjective premises. The algorithms are validated with two case studies, where E. coli is used to produce succinate and lactate. Results show that this option provides an efficient alternative to the previous approaches, returning not a single solution, but rather sets of solutions that are trade-offs among the distinct objective functions. Availability: Algorithms are implemented as a plug-in for the open-source OptFlux [2] platform available in the site http://www.optflux.org

Multiobjective genetic algorithm strategies for electricity production from generation IV nuclear technology

Development of a technico-economic optimization strategy of cogeneration systems of electricity/hydrogen, consists in finding an optimal efficiency of the generating cycle and heat delivery system, maximizing the energy production and minimizing the production costs. The first part of the paper is related to the development of a multiobjective optimization library (MULTIGEN) to tackle all types of problems arising from cogeneration. After a literature review for identifying the most efficient methods, the MULTIGEN library is described, and the innovative points are listed. A new stopping criterion, based on the stagnation of the Pareto front, may lead to significant decrease of computational times, particularly in the case of problems involving only integer variables. Two practical examples are presented in the last section. The former is devoted to a bicriteria optimization of both exergy destruction and total cost of the plant, for a generating cycle coupled with a Very High Temperature Reactor (VHTR). The second example consists in designing the heat exchanger of the generating turbomachine. Three criteria are optimized: the exchange surface, the exergy destruction and the number of exchange modules

Improving the multi-objective evolutionary optimization algorithm for hydropower reservoir operations in the California Oroville-Thermalito complex

This study demonstrates the application of an improved Evolutionary optimization Algorithm (EA), titled Multi-Objective Complex Evolution Global Optimization Method with Principal Component Analysis and Crowding Distance Operator (MOSPD), for the hydropower reservoir operation of the Oroville-Thermalito Complex (OTC) - a crucial head-water resource for the California State Water Project (SWP). In the OTC's water-hydropower joint management study, the nonlinearity of hydropower generation and the reservoir's water elevation-storage relationship are explicitly formulated by polynomial function in order to closely match realistic situations and reduce linearization approximation errors. Comparison among different curve-fitting methods is conducted to understand the impact of the simplification of reservoir topography. In the optimization algorithm development, techniques of crowding distance and principal component analysis are implemented to improve the diversity and convergence of the optimal solutions towards and along the Pareto optimal set in the objective space. A comparative evaluation among the new algorithm MOSPD, the original Multi-Objective Complex Evolution Global Optimization Method (MOCOM), the Multi-Objective Differential Evolution method (MODE), the Multi-Objective Genetic Algorithm (MOGA), the Multi-Objective Simulated Annealing approach (MOSA), and the Multi-Objective Particle Swarm Optimization scheme (MOPSO) is conducted using the benchmark functions. The results show that best the MOSPD algorithm demonstrated the best and most consistent performance when compared with other algorithms on the test problems. The newly developed algorithm (MOSPD) is further applied to the OTC reservoir releasing problem during the snow melting season in 1998 (wet year), 2000 (normal year) and 2001 (dry year), in which the more spreading and converged non-dominated solutions of MOSPD provide decision makers with better operational alternatives for effectively and efficiently managing the OTC reservoirs in response to the different climates, especially drought, which has become more and more severe and frequent in California

A multi-objective genetic algorithm for the design of pressure swing adsorption

Pressure Swing Adsorption (PSA) is a cyclic separation process, more advantageous over other separation options for middle scale processes. Automated tools for the design of PSA processes would be beneficial for the development of the technology, but their development is a difficult task due to the complexity of the simulation of PSA cycles and the computational effort needed to detect the performance at cyclic steady state. We present a preliminary investigation of the performance of a custom multi-objective genetic algorithm (MOGA) for the optimisation of a fast cycle PSA operation, the separation of air for N2 production. The simulation requires a detailed diffusion model, which involves coupled nonlinear partial differential and algebraic equations (PDAEs). The efficiency of MOGA to handle this complex problem has been assessed by comparison with direct search methods. An analysis of the effect of MOGA parameters on the performance is also presented

Strategies for multiobjective genetic algorithm development: Application to optimal batch plant design in process systems engineering

This work deals with multiobjective optimization problems using Genetic Algorithms (GA). A MultiObjective GA (MOGA) is proposed to solve multiobjective problems combining both continuous and discrete variables. This kind of problem is commonly found in chemical engineering since process design and operability involve structural and decisional choices as well as the determination of operating conditions. In this paper, a design of a basic MOGA which copes successfully with a range of typical chemical engineering optimization problems is considered and the key points of its architecture described in detail. Several performance tests are presented, based on the influence of bit ranging encoding in a chromosome. Four mathematical functions were used as a test bench. The MOGA was able to find the optimal solution for each objective function, as well as an important number of Pareto optimal solutions. Then, the results of two multiobjective case studies in batch plant design and retrofit were presented, showing the flexibility and adaptability of the MOGA to deal with various engineering problems

Approximating Pareto frontier using a hybrid line search approach

This is the post-print version of the final paper published in Information Sciences. The published article is available from the link below. Changes resulting from the publishing process, such as peer review, editing, corrections, structural formatting, and other quality control mechanisms may not be reflected in this document. Changes may have been made to this work since it was submitted for publication. Copyright @ 2010 Elsevier B.V.The aggregation of objectives in multiple criteria programming is one of the simplest and widely used approach. But it is well known that this technique sometimes fail in different aspects for determining the Pareto frontier. This paper proposes a new approach for multicriteria optimization, which aggregates the objective functions and uses a line search method in order to locate an approximate efficient point. Once the first Pareto solution is obtained, a simplified version of the former one is used in the context of Pareto dominance to obtain a set of efficient points, which will assure a thorough distribution of solutions on the Pareto frontier. In the current form, the proposed technique is well suitable for problems having multiple objectives (it is not limited to bi-objective problems) and require the functions to be continuous twice differentiable. In order to assess the effectiveness of this approach, some experiments were performed and compared with two recent well known population-based metaheuristics namely ParEGO and NSGA II. When compared to ParEGO and NSGA II, the proposed approach not only assures a better convergence to the Pareto frontier but also illustrates a good distribution of solutions. From a computational point of view, both stages of the line search converge within a short time (average about 150 ms for the first stage and about 20 ms for the second stage). Apart from this, the proposed technique is very simple, easy to implement and use to solve multiobjective problems.CNCSIS IDEI 2412, Romani