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蛋白质结构预测聚类算法的评估

Clustering Algorithm Assessment of Protein Structure Prediction
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摘要 在7个数据集上对3种不同聚类算法与3种不同相似性度量标准的多种组合进行实验,以评估这些因素对聚类性能的影响。为便于确定聚类参数,提出一种针对蛋白质结构预测的聚类中心选择算法。实验结果表明,在3种相似性度量标准中,RMSD对于聚类的效果最好,而在3种聚类算法中,SPICKER性能最优,其次是AP聚类算法。 This paper implements many trials with three clustering algorithms and three metrics in seven data sets for assessment of clustering performance with these factors. It suggests a selecting exemplar algorithm for identifying the clustering parameters. Experimental results show that the metric Root Mean Square Deviation(RMSD) is better than other metrics. The algorithm SPICKER is better than others, and the AP clustering algorithm is in the next place.
出处 《计算机工程》 CAS CSCD 北大核心 2011年第1期24-27,共4页 Computer Engineering
基金 国家自然科学基金资助项目(60970055)
关键词 蛋白质结构预测 候选结构 聚类算法 相似性度量 评估 protein structure prediction candidate structure clustering algorithm comparability metrics assessment
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参考文献9

  • 1Anfinsen C B. P(inciples That Govern the Folding of Protein Chains[J]. Science, 1973, 181(4096): 223-230.
  • 2张宏怡,吴秀伟,章忠威.改进的离群核模糊聚类算法[J].计算机工程,2009,35(11):190-192. 被引量:2
  • 3Kryshtafovych A, Milostan M, Szajkowski L, et al. Casp6 Data Processing and Automatic Evaluation at the Protein Structure Prediction Center[J]. Proteins, 2005, 61($7): 19-23.
  • 4Tress M, Ezkurdia I, Grana O, et al. Assessment of Predictions Submitted for the Casp6 Comparative Modeling Category[J]. Proteins, 2005, 61(S7): 27-45.
  • 5Zhang Yang. I-Tasser Server for Protein 3D Structure Prediction[J]. BMC Bioinformatics, 2008, 9(40): 1-8.
  • 6Zhang Yang, Skolnick J. Scoring Function for Automated Assessment of Protein Structure Template Quality[J]. Proteins, 2004, 57(4): 702-710.
  • 7Frey B J, Dueck D. Clustering by Passing Messages Between Data Points[J]. Science, 2007, 315(5814): 972-976.
  • 8Shortle D, Simons K T, Baker D. Clustering of Low-energy Conformations Near the Native Structures of Small Proteins[J]. Proceedings of the National Academy of Sciences of USA, 1998, 95(19): 11158-11162.
  • 9Zhang Yang, Skolnick J. SPICKER: A Clustering Approach to Identify Near-native Protein Folds[J]. Journal of Computational Chemistry, 2004, 25(6): 865-871.

二级参考文献4

  • 1沈红斌,王士同,吴小俊.离群模糊核聚类算法[J].软件学报,2004,15(7):1021-1029. 被引量:37
  • 2Hawkins D. Identification of Oufliers[M]. London, UK: Chapman and Hall, 1980.
  • 3Barnett V. Outlier in Statistical Data[M]. New York, USA: John Wiley & Sons, 1987.
  • 4Tabachnick B. Using Multivariate Statistics[M]. New York, USA: HarperCollins, 1996.

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