Sequence-based Prediction of Protein-Protein Interactions Using Gray Wolf Optimizer-Based Relevance Vector Machine
文献类型:期刊论文
作者 | An, JY (An, Ji-Yong)[ 1,2 ]; You, ZH (You, Zhu-Hong)[ 3 ]![]() |
刊名 | EVOLUTIONARY BIOINFORMATICS
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出版日期 | 2019 |
卷号 | 15期号:5页码:1-10 |
关键词 | RVM gray wolf optimizer BIG PSSM |
ISSN号 | 1176-9343 |
DOI | 10.1177/1176934319844522 |
英文摘要 | Protein-protein interactions (PPIs) are essential to a number of biological processes. The PPIs generated by biological experiment are both time-consuming and expensive. Therefore, many computational methods have been proposed to identify PPIs. However, most of these methods are limited as they are difficult to compute and rely on a large number of homologous proteins. Accordingly, it is urgent to develop effective computational methods to detect PPIs using only protein sequence information. The kernel parameter of relevance vector machine (RVM) is set by experience, which may not obtain the optimal solution, affecting the prediction performance of RVM. In this work, we presented a novel computational approach called GWORVM-BIG, which used Bi-gram (BIG) to represent protein sequences on a position-specific scoring matrix (PSSM) and GWORVM classifier to perform classification for predicting PPIs. More specifically, the proposed GWORVM model can obtain the optimum solution of kernel parameters using gray wolf optimizer approach, which has the advantages of less control parameters, strong global optimization ability, and ease of implementation compared with other optimization algorithms. The experimental results on yeast and human data sets demonstrated the good accuracy and efficiency of the proposed GWORVM-BIG method. The results showed that the proposed GWORVM classifier can significantly improve the prediction performance compared with the RVM model using other optimizer algorithms including grid search (GS), genetic algorithm (GA), and particle swarm optimization (PSO). In addition, the proposed method is also compared with other existing algorithms, and the experimental results further indicated that the proposed GWORVM-BIG model yields excellent prediction performance. For facilitating extensive studies for future proteomics research, the GWORVMBIG server is freely available for academic use at |
WOS记录号 | WOS:000467164100001 |
源URL | [http://ir.xjipc.cas.cn/handle/365002/5768] ![]() |
专题 | 新疆理化技术研究所_多语种信息技术研究室 |
通讯作者 | You, ZH (You, Zhu-Hong)[ 3 ] |
作者单位 | 1.China Univ Min & Technol, Sch Comp Sci & Technol, Xuzhou, Jiangsu, Peoples R China 2.Minstry Educ Peoples Republ China, Mine Digitizat Engn Res Ctr, Beijing, Peoples R China 3.Chinese Acad Sci, Xinjiang Tech Inst Phys & Chem, Urumqi 830011, Peoples R China |
推荐引用方式 GB/T 7714 | An, JY ,You, ZH ,Zhou, Y ,et al. Sequence-based Prediction of Protein-Protein Interactions Using Gray Wolf Optimizer-Based Relevance Vector Machine[J]. EVOLUTIONARY BIOINFORMATICS,2019,15(5):1-10. |
APA | An, JY ,You, ZH ,Zhou, Y ,&Wang, DF .(2019).Sequence-based Prediction of Protein-Protein Interactions Using Gray Wolf Optimizer-Based Relevance Vector Machine.EVOLUTIONARY BIOINFORMATICS,15(5),1-10. |
MLA | An, JY ,et al."Sequence-based Prediction of Protein-Protein Interactions Using Gray Wolf Optimizer-Based Relevance Vector Machine".EVOLUTIONARY BIOINFORMATICS 15.5(2019):1-10. |
入库方式: OAI收割
来源:新疆理化技术研究所
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