• 中国计算机学会会刊
  • 中国科技核心期刊
  • 中文核心期刊
论文

基于多特征尺度的大肠杆菌启动子预测

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  • (1.内蒙古大学研究生工作部,内蒙古 呼和浩特 010021;2.电子科技大学生命科学与技术学院,四川 成都 610054)
杨乌日吐(1981),男,辽宁阜新人,博士,讲师,研究方向为生物信息学;林昊,博士,副教授,研究方向为生物信息学。

收稿日期: 2010-03-13

  修回日期: 2010-06-10

  网络出版日期: 2010-09-02

基金资助

内蒙古大学青年科学基金资助项目(ND0810);电子科技大学科研启动费资助项目

Prediction of the E.coliK12 Promoter Based on MultiFeature Selection

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  • (1.Graduate Affairs Department,Inner Mongolia University,Hohhot 010021;2.School of Life Science and Technology,University of Electronic Science and Technology of China,Chengdu 610054,China)

Received date: 2010-03-13

  Revised date: 2010-06-10

  Online published: 2010-09-02

摘要

本文对实验证实的741条大肠杆菌Sigma70启动子的序列进行预测研究。首先,基于RNA聚合酶与DNA的相互作用,利用位置打分函数对序列中的保守位点进行了衡量;然后,根据启动子的序列特征,利用离散性指标对序列中不同的碱基信息含量进行测量;最后,利用多元非线性判别分析实现了对大肠杆菌启动子的预测。10折叠交叉检验结果显示,总体预测精度达到85%以上。与其它算法比较结果显示,我们开发的这一算法能够更好地预测大肠杆菌启动子。

本文引用格式

杨乌日吐1,林昊2 . 基于多特征尺度的大肠杆菌启动子预测[J]. 计算机工程与科学, 2010 , 32(9) : 148 -151 . DOI: 10.3969/j.issn.1007130X.2010.

Abstract

According to the known knowledge of 741 experimentally confirmed Sigma70 promoters, the promoters are predicted. At first, based on the interaction between RNAp and DNA elements, the positioncorrelationscorefunction (PCSF) algorithm is used to measure the conservative sits in promoter sequences. Subsequently, according to the characteristics of promoters, a diversity index is applied to measure the information content in different regions. Finally, the modified Mahalanobis Discriminant is proposed to perform prediction. The overall accuracies of 10fold crossvalidation of 85%+ are achieved. By comparing with other methods, it is shown that the proposed method can recognize the  Escherichia coli promoters with high accuracy.

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