吉林大学学报(工学版) ›› 2009, Vol. 39 ›› Issue (05): 1303-1308.

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Protein contact map prediction based on improved clonal selection algorithm

LIU Gui-xia, WANG Rong-xing, |HUANG Lan, |YU Zhe-zhou, ZHOU Chun-guang   

  1. College of Computer Science and Technology, Jilin University|Changchun 130012,China
  • Received:2009-02-25 Online:2009-09-01 Published:2009-09-01

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Abstract:

    An improved clonal selection algorithm for protein contact map prediction is proposed. The fitness function of the algorithm is constructed by using the protein folding restrictions, such as the hydrophobicity of amino acids, the secondary structure inclination of residues, the total number of contacts in contact map, and so on. Variance operation according with the biological properties of the contact map is designed. This algorithm does not need additional proteins as the training set to extract the template; therefore it is not affected by the existing limitations of protein structure. Prediction tests for 200 nonhomological proteins with different lengths are conducted and the results verify the effectiveness of the algorithm.

Key words: artificial intelligence, protein contact maps, immune algorithm, clonal selection algorithm, amino acids&prime, hydrophobicity

CLC Number: 

  • TP183
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