Commenced in January 2007
Frequency: Monthly
Edition: International
Paper Count: 5

Evolutionary Computation Related Publications

5 Primer Design with Specific PCR Product using Particle Swarm Optimization

Authors: Cheng-Hong Yang, Yu-Huei Cheng, Hsueh-Wei Chang, Li-Yeh Chuang

Abstract:

Before performing polymerase chain reactions (PCR), a feasible primer set is required. Many primer design methods have been proposed for design a feasible primer set. However, the majority of these methods require a relatively long time to obtain an optimal solution since large quantities of template DNA need to be analyzed. Furthermore, the designed primer sets usually do not provide a specific PCR product. In recent years, evolutionary computation has been applied to PCR primer design and yielded promising results. In this paper, a particle swarm optimization (PSO) algorithm is proposed to solve primer design problems associated with providing a specific product for PCR experiments. A test set of the gene CYP1A1, associated with a heightened lung cancer risk was analyzed and the comparison of accuracy and running time with the genetic algorithm (GA) and memetic algorithm (MA) was performed. A comparison of results indicated that the proposed PSO method for primer design finds optimal or near-optimal primer sets and effective PCR products in a relatively short time.

Keywords: Evolutionary Computation, Particle Swarm Optimization (PSO), polymerase chain reaction (PCR), primer design

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4 Pattern Recognition of Biological Signals

Authors: Paulo S. Caparelli, Eduardo Costa, Alexsandro S. Soares, Hipolito Barbosa

Abstract:

This paper presents an evolutionary method for designing electronic circuits and numerical methods associated with monitoring systems. The instruments described here have been used in studies of weather and climate changes due to global warming, and also in medical patient supervision. Genetic Programming systems have been used both for designing circuits and sensors, and also for determining sensor parameters. The authors advance the thesis that the software side of such a system should be written in computer languages with a strong mathematical and logic background in order to prevent software obsolescence, and achieve program correctness.

Keywords: Pattern Recognition, Evolutionary Computation, Functional Programming, biological signal

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3 Fractional Delay FIR Filters Design with Enhanced Differential Evolution

Authors: Krzysztof Walczak

Abstract:

Fractional delay FIR filters design method based on the differential evolution algorithm is presented. Differential evolution is an evolutionary algorithm for solving a global optimization problems in the continuous search space. In the proposed approach, an evolutionary algorithm is used to determine the coefficients of a fractional delay FIR filter based on the Farrow structure. Basic differential evolution is enhanced with a restricted mating technique, which improves the algorithm performance in terms of convergence speed and obtained solution. Evolutionary optimization is carried out by minimizing an objective function which is based on the amplitude response and phase delay errors. Experimental results show that the proposed algorithm leads to a reduction in the amplitude response and phase delay errors relative to those achieved with the Least-Squares method.

Keywords: Evolutionary Computation, Differential Evolution, Fractional Delay Filters, Farrow Structure

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2 Chose the Right Mutation Rate for Better Evolve Combinational Logic Circuits

Authors: Cyrille Lambert, Tatiana Kalganova, Emanuele Stomeo

Abstract:

Evolvable hardware (EHW) is a developing field that applies evolutionary algorithm (EA) to automatically design circuits, antennas, robot controllers etc. A lot of research has been done in this area and several different EAs have been introduced to tackle numerous problems, as scalability, evolvability etc. However every time a specific EA is chosen for solving a particular task, all its components, such as population size, initialization, selection mechanism, mutation rate, and genetic operators, should be selected in order to achieve the best results. In the last three decade the selection of the right parameters for the EA-s components for solving different “test-problems" has been investigated. In this paper the behaviour of mutation rate for designing logic circuits, which has not been done before, has been deeply analyzed. The mutation rate for an EHW system modifies the number of inputs of each logic gates, the functionality (for example from AND to NOR) and the connectivity between logic gates. The behaviour of the mutation has been analyzed based on the number of generations, genotype redundancy and number of logic gates for the evolved circuits. The experimental results found provide the behaviour of the mutation rate during evolution for the design and optimization of simple logic circuits. The experimental results propose the best mutation rate to be used for designing combinational logic circuits. The research presented is particular important for those who would like to implement a dynamic mutation rate inside the evolutionary algorithm for evolving digital circuits. The researches on the mutation rate during the last 40 years are also summarized.

Keywords: Evolutionary Computation, Evolvable hardware, mutation rate, design of logic circuit

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1 FPGA-based Systems for Evolvable Hardware

Authors: Cyrille Lambert, Tatiana Kalganova, Emanuele Stomeo

Abstract:

Since 1992, year where Hugo de Garis has published the first paper on Evolvable Hardware (EHW), a period of intense creativity has followed. It has been actively researched, developed and applied to various problems. Different approaches have been proposed that created three main classifications: extrinsic, mixtrinsic and intrinsic EHW. Each of these solutions has a real interest. Nevertheless, although the extrinsic evolution generates some excellent results, the intrinsic systems are not so advanced. This paper suggests 3 possible solutions to implement the run-time configuration intrinsic EHW system: FPGA-based Run-Time Configuration system, JBits-based Run-Time Configuration system and Multi-board functional-level Run-Time Configuration system. The main characteristic of the proposed architectures is that they are implemented on Field Programmable Gate Array. A comparison of proposed solutions demonstrates that multi-board functional-level run-time configuration is superior in terms of scalability, flexibility and the implementation easiness.

Keywords: Evolutionary Computation, Evolvable hardware, FPGA systems

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