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基于混合SVM方法的蛋白质二级结构预测算法
  • 摘要

    预测蛋白质二级结构,是当今生物信息学中一个难以解决的问题.由于预测蛋白质二级结构的精度在蛋白质结构研究中起到非常重要的作用,因此在基于KDTICM理论基础上,提出一种基于混合SVM方法的蛋白质二级结构预测算法.该算法有效地利用蛋白质的物化属性和PSI-SEARCH生成的位置特异性打分矩阵作为双层SVM的输入,从而大大地提高了蛋白质二级结构预测的精度.实验比较分析表明,新算法的预测精度和普适性明显优于目前其他典型的预测方法.

  • 作者

    隋海峰  曲武  钱文彬  杨炳儒  SUI Hai-feng  QU Wu  QIAN Wen-bin  YANG Bing-ru 

  • 作者单位

    北京科技大学信息工程学院 北京100083

  • 刊期

    2011年10期 ISTIC PKU

  • 关键词

    蛋白质二级结构预测  混合SVM方法  复合金字塔模型 

参考文献
  • [1] 张晓龙,李婷婷,芦进. 基于Toy模型蛋白质折叠预测的多种群微粒群优化算法研究. 计算机科学, 2008,10
  • [2] 闫化军,傅彦,章毅,李毅超. 神经网络方法预测蛋白质二级结构. 计算机科学, 2003,11
  • [3] 杨炳儒,谢永红,侯伟,周谆. 基于复合金字塔模型的蛋白质二级结构预测系统. 科学通报, 2009,21
  • [4] Ben-Gal I;Shani A;Gohr A;Grau J;Arviv S;Shmilovici A;Posch S;Grosse I. Identification of transcription factor binding sites with variable-order Bayesian networks. Bioinformatics, 2005,11
  • [5] Jones DT. Protein secondary structure prediction based on position-specific scoring matrices.. Journal of Molecular Biology, 1999,2
  • [6] Jinyan Li;Limsoon Wong;Qiang Yang. Guest Editors' Introduction: Data Mining in Bioinformatics. IEEE intelligent systems, 2005,6
  • [7] Hua SJ.;Sun ZR.. A novel method of protein secondary structure prediction with high segment overlap measure: Support vector machine approach. Journal of Molecular Biology, 2001,2
  • [8] Hua SJ.;Sun ZR.. A novel method of protein secondary structure prediction with high segment overlap measure: Support vector machine approach. Journal of Molecular Biology, 2001,2
  • [9] 杨炳儒. 基于内在机理的知识发现理论及其应用. 北京:电子工业出版社, 2004
  • [10] Yang B R;Hou W;Zhou Z. Kaapro:An approach of protein secondary structure prediction based on kdd* in the compound pyramid prediction model. Expert Systems with Applications, 2009,05
  • [11] Heniko S;Heniko J G. Amino acid substitution matrices from protein blocks. Proceedings of the National Academy of Sciences of the United States of America, 1992,22
  • [12] . http://bioinf.cs.ucl.ac.uk/psipred/psiform.html
  • [13] . http://www.compbio.dundee.ac.uk/www-jpred/
  • [14] . http://cubic.bioc.columbia.edu/predictprotein/
  • [15] . http://compbio.soe.ucsc.edu/SAM_T08/T08-query.html
  • [16] . http://wks16338.biology.ualberta.ca/proteus2/
  • [17] Yang A S;Wang L Y. Local structure prediction with local structure-based sequence profiles. Bioinformatics, 2003
  • [18] Rost B;Sander C;Schneider R. Phd-an automatic mail server for protein secondary structure prediction. Computer Applications in the Bioeciences, 1994,01
  • [19] Rost B;Sander C. Prediction of secondary structure at better than 70% accuracy. Journal of Molecular Biology, 1993,02
  • [20] Zemla. A modified definition of SOV,a segment-based measure for protein secondary structure prediction assessment. Proteins:Structure,Function,and Genetics, 1999,02
  • [21] Hou Wei;Yang Bing-ru;Wu Chen sheng. RedTrees:A relational decision tree algorithm in streams. Expert Systems with Applications, 2010,09
  • [22] Cuff J A;Barton G J. Evaluation and improvement of multiple sequence methods for protein secondary structure prediction. Proteins:Structure,Function,and Genetics, 1999,04
  • [23] Cuff J;Clamp M;Siddiqui A. JPRED:A consensus secondary structure prediction server. Bioirformatics, 1998
  • [24] Montgomerie S;Cruz J A;Shrivastava S. Proteus2:a web server for comprehensive protein structure prediction and structure-based annotation. Nucleic Acids Research, 2008
  • [25] Kabsch W;Sander C. Dictionary of protein secondary structure:pattern recognition of hydrogen bonded and geometrical features. Biopolymers(Peptide Science), 1983,12
  • [26] Wootton J C;Federhen S. Analysis of compositionally biased regions in sequence databases. Methods in Enzymology, 1996
  • [27] Qian N;Sejnowski T J. Predicting the secondary structure of globular proteins using neural network models. Journal of Molecular Biology, 1988
  • [28] Karplus K;Karchin R;Draper J. Combining local-structure,fold-recognition,and new fold methods for protein structure prediction. Proteins:Structure,Function,and Genetics, 2003,06
  • [29] Smith T F;Waterman M S. Identification of common molecular subsequences. Journal of Molecular Biology, 1981,01
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