Brazilian Computer Society. Journal | |
Protein structure prediction with the 3D-HP side-chain model using a master–slave parallel genetic algorithm | |
rio Lopes1  Cé2  Heitor Silvé3  sar Manuel Vargas Bení4  tez5  | |
[1] , Curitiba, Brazil;Laboratógica Federal do Paranário de Bioinformática, CPGEI, Universidade Tecnoló | |
关键词: Genetic algorithm; Bioinformatics; Protein folding; 3D-HP-SC; | |
DOI : 10.1007/s13173-010-0002-6 | |
学科分类:农业科学(综合) | |
来源: Springer U K | |
【 摘 要 】
This work presents a master-slave parallel genetic algorithm for the protein folding problem, using the 3D-HP side-chain model (3D-HP-SC). This model is sparsely studied in the literature, although more expressive than other lattice models. The fitness function proposed includes information not only about the free-energy of the conformation, but also compactness of the side-chains. Since there is no benchmark available to date for this model, a set of 15 sequences was used, based on a simpler model. Results show that the parallel GA achieved a good level of efficiency and obtained biologically coherent results, suggesting the adequacy of the methodology. Future work will include new biologically-inspired genetic operators and more experiments to create new benchmarks.
【 授权许可】
CC BY
【 预 览 】
Files | Size | Format | View |
---|---|---|---|
RO201902197170761ZK.pdf | 548KB | download |