基于复合物信息和亚细胞定位信息的关键蛋白质识别
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TP399

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国家自然科学基金资助项目(41562019,41530640);江西省自然基金资助项目(GJJ161566,20161BAB203093);江西省教育厅科技项目(GJJ181504, GJJ151528)第一


Identification of Essential Proteins based on Protein Complexes Information and Subcellular Locallization Information
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the National Natural Science Foundation of China;the National Natural Science Foundation of Jiangxi Province,China;Jiangxi Provincial Technology of Education Department

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    摘要:

    针对蛋白质相互作用网络(Protein-Protein interaction,PPI)中存在大量噪音,以及现有关键蛋白识别方法的挖掘效率和预测准确率不高等问题,提出了一种基于复合物信息和亚细胞定位信息(United Protein Complexes and Subcellular Locallizations,PCSL)来识别关键蛋白质。首先,整合PPI网络的拓扑属性、生物属性和空间属性构建加权网络,以降低PPI网络中噪音的影响,达到提升PPI网络的可靠性的目的;其次,根据复合物信息和空间信息,设计一种衡量蛋白质关键性的度量,从多维角度强化关键蛋白质在PPI中的重要程度;最后,基于CPPK寻优算法,设计一种新的试探策略,提升挖掘关键蛋白质的效率。PCSL方法应用在DIP数据集上进行验证,实验结果表明,与其他10种关键蛋白质识别方法相比较,该方法具有较好的识别性能,能够识别更多的关键蛋白质。

    Abstract:

    Due to the noise in protein-protein interaction(PPI) network, the poor efficiency of detecting process, as well as the poor identification accuracy of essential proteins, this paper proposed a method named PCSL(United Protein Complexes and Subcellular Locallizations) based on protein complex information and subcellular locallizations to identify essential proteins. Firstly, this method integrate topological data, biological data and subcellular locallization data to construct weighted network to reduce the noise(the false positive and the false negative) impact in the original PPI network. Secondly, according to the complex property and space property of essential proteins, this paper designed a measure to measure the essentiality of proteins from weighted network, which emphasize the importance of the essential proteins fromSmulti-dimension angle. Finally, based on CPPK algorithm, a new probe strategy is designed to improve the efficiency of detecting essential proteins from weighted network. This paper applied PCSL method to the DIP dataset for predicting essential proteins. Compared with other ten methods of predicting essential proteins, the experimental results show that this method can identify more essential proteins and have a better performance on predicting essential proteins.

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毛伊敏,章宇盟,胡健. 基于复合物信息和亚细胞定位信息的关键蛋白质识别[J]. 科学技术与工程, 2020, 20(17): 6970-6976.
Mao Yimin, Zhang Yumeng, Hu Jian. Identification of Essential Proteins based on Protein Complexes Information and Subcellular Locallization Information[J]. Science Technology and Engineering,2020,20(17):6970-6976.

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历史
  • 收稿日期:2019-09-04
  • 最后修改日期:2020-06-14
  • 录用日期:2019-12-19
  • 在线发布日期: 2020-07-07
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