| 引用本文: | 闫妍,万平.利用位点特异性打分矩阵对大肠杆菌启动子的预测[J].生物信息学,2015,13(2):125-130. |
| YAN Yan,WAN Ping.Prediction of Escherichia coliK-12 promoters using position-specific scoring matrix (PSSM) method[J].Chinese Journal of Bioinformatics,2015,13(2):125-130. |
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| 摘要: |
| 启动子是基因转录起始的一个关键性元件。本研究利用数据库中提供的大肠杆菌启动子数据,基于位点特异性打分矩阵(Position-specific scoring matrix,PSSM)算法建立了大肠杆菌启动子预测方法,并采用ROC曲线对预测结果进行评估。结果显示,本方法对大肠杆菌sigma24、sigma28、sigma32、sigma38、sigma54和sigma70启动子预测的准确度分别达到86%,96%,93%,96%,97%和74%。由于原核生物启动子序列的保守性,可将该方法推广至其他原核生物的启动子预测。 |
| 关键词: 大肠杆菌 启动子 位点特异性打分矩阵(PSSM) 预测 |
| DOI：10.3969/j.issn.1672-5565.2015.02.09 |
| 分类号:Q811.4 |
| 基金项目: |
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| Prediction of Escherichia coliK-12 promoters using position-specific scoring matrix (PSSM) method |
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YAN Yan, WAN Ping
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(College of Life Science, Capital Normal University, Beijing 100048 , China)
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| Abstract: |
| Promoter is an essential element in transcription initiation. In this study, we proposed a method for the promoter prediction based on the position-specific scoring matrix(PSSM) constructed with the data from RegulonDB database,and evaluated the performance through the receiver operating characteristic(ROC). We predicted the Escherichia coliK-12 promoters, the accuracies of predictions for sigma24, sigma28, sigma32, sigma38, sigma54 and sigma70 are 86%, 96%, 93%, 96%, 97% and 74%, respectively. Since promoter sequences are conserved among prokaryotes, PSSM could be applied to the prediction of prokaryotic promoters. |
| Key words: E.coli Promoter Position-specific Scoring matrix Prediction |
