| 基于序列保守性和蛋白质相互作用的真核蛋白质亚细胞定位预测 |
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| 引用本文： | 张松,夏学峰,沈金城,孙之荣. 基于序列保守性和蛋白质相互作用的真核蛋白质亚细胞定位预测[J]. 生物化学与生物物理进展, 2008, 35(5): 531-535 |
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| 作者姓名： | 张松 夏学峰 沈金城 孙之荣 |
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| 作者单位： | 清华大学生物科学与技术系,教育部生物信息学重点实验室,生物膜和膜生物技术国家重点实验室,北京,100084 |
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| 基金项目： | 国家重点基础研究发展计划(973计划) , 国家高技术研究发展计划(863计划) , 国家自然科学基金 |
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| 摘 要： | 蛋白质的亚细胞定位是进行蛋白质功能研究的重要信息.蛋白质合成后被转运到特定的细胞器中,只有转运到正确的部位才能参与细胞的各种生命活动,有效地发挥功能.尝试了将保守序列及蛋白质相互作用数据的编码信息结合传统的氨基酸组成编码,采用支持向量机进行蛋白质亚细胞定位预测,在真核生物中5轮交叉验证精度达到91.8%,得到了显著的提高.
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| 关 键 词： | 亚细胞定位 氨基酸组成 序列保守性 蛋白质相互作用 支持向量机 序列保守性 蛋白质 相互作用 真核生物 亚细胞定位 定位预测 Interaction Conservation Sequence Based Prediction Subcellular Localization 精度 交叉验证 支持向量机 编码信息 组成 氨基酸 结合 数据 |
| 收稿时间： | 2007-09-03 |
| 修稿时间： | 2007-09-03 |
Eukaryotic Protein Subcellular Localization Prediction Based on Sequence Conservation and Protein-Protein Interaction |
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| ZHANG Song,XIA Xue-Feng,SHEN Jin-Cheng and SUN Zhi-Rong. Eukaryotic Protein Subcellular Localization Prediction Based on Sequence Conservation and Protein-Protein Interaction[J]. Progress In Biochemistry and Biophysics, 2008, 35(5): 531-535 |
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| Authors: | ZHANG Song XIA Xue-Feng SHEN Jin-Cheng SUN Zhi-Rong |
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| Affiliation: | Institute of Bioinformatics and System Biology, MOE Key Laboratory of Bioinformatics, State Key Laboratory of Biomembrane and Membrane Biotechnology, Department of Biological Science and Biotechnology, Tsinghua University, Beijing 100084, China;Institute of Bioinformatics and System Biology, MOE Key Laboratory of Bioinformatics, State Key Laboratory of Biomembrane and Membrane Biotechnology, Department of Biological Science and Biotechnology, Tsinghua University, Beijing 100084, China;Institute of Bioinformatics and System Biology, MOE Key Laboratory of Bioinformatics, State Key Laboratory of Biomembrane and Membrane Biotechnology, Department of Biological Science and Biotechnology, Tsinghua University, Beijing 100084, China;Institute of Bioinformatics and System Biology, MOE Key Laboratory of Bioinformatics, State Key Laboratory of Biomembrane and Membrane Biotechnology, Department of Biological Science and Biotechnology, Tsinghua University, Beijing 100084, China |
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| Abstract: | Subcellular localization is a key characteristic of protein functional research. Proteins are transported to specific compartment after they are synthesized in cells. They can take part in the cell activity and function efficiently when in correct subcellular location. Sequence homolog, protein-protein interaction information and traditional amino acid composition are combined as input parameters of support vector machine (SVM) to predict eukaryotic protein subcellular localization. The total accuracy of 5-fold cross validation is 91.8%, which is higher than other methods. |
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| Keywords: | subcellular localization amino acid composition sequence conservation protein-protein interaction support vector machine |
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