Title :
Aligning multiple sequences by genetic algorithm
Author :
Liu, Li-fang ; Huo, Hong-wei ; Wang, Bao-shu
Author_Institution :
Sch. of Comput. Sci. & Technol., Xidian Univ., Xi´´an, China
Abstract :
The paper presents a genetic algorithm for solving multiple sequence alignment in bioinformatics. The algorithm involves four different operators, one type of selection operator, two types of crossover operators, and one type of mutation operator; the mutation operator is realized by a dynamic programming method. Experimental results of benchmarks from the BAliBASE show that the proposed algorithm is feasible for aligning equidistant protein sequences, and the quality of alignment is comparable to that obtained with ClustalX.
Keywords :
dynamic programming; genetic algorithms; medical computing; molecular biophysics; molecular configurations; proteins; sequences; BAliBASE; ClustalX; bioinformatics; crossover operators; dynamic programming; equidistant protein sequence alignment; genetic algorithm; molecular sequence analysis; multiple sequence alignment; mutation operator; selection operator; Computer science; Dynamic programming; Genetic algorithms; Genetic mutations; Hidden Markov models; Iterative algorithms; Multidimensional systems; Packaging; Proteins; Sequences;
Conference_Titel :
Communications, Circuits and Systems, 2004. ICCCAS 2004. 2004 International Conference on
Print_ISBN :
0-7803-8647-7
DOI :
10.1109/ICCCAS.2004.1346346