Global Vectors Representation of Protein Sequences and Its Application for Predicting Self-Interacting Proteins with Multi-Grained Cascade Forest Model
文献类型:期刊论文
作者 | Chen, ZH (Chen, Zhan-Heng)[ 1,2 ]; You, ZH (You, Zhu-Hong)[ 1,2 ]![]() |
刊名 | GENES
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出版日期 | 2019 |
卷号 | 10期号:11页码:1-12 |
关键词 | self-interacting proteins de novo protein sequence global vector representation multi-grained cascade forest |
ISSN号 | 2073-4425 |
DOI | 10.3390/genes10110924 |
英文摘要 | Self-interacting proteins (SIPs) is of paramount importance in current molecular biology. There have been developed a number of traditional biological experiment methods for predicting SIPs in the past few years. However, these methods are costly, time-consuming and inefficient, and often limit their usage for predicting SIPs. Therefore, the development of computational method emerges at the times require. In this paper, we for the first time proposed a novel deep learning model which combined natural language processing (NLP) method for potential SIPs prediction from the protein sequence information. More specifically, the protein sequence is de novo assembled by k-mers. Then, we obtained the global vectors representation for each protein sequences by using natural language processing (NLP) technique. Finally, based on the knowledge of known self-interacting and non-interacting proteins, a multi-grained cascade forest model is trained to predict SIPs. Comprehensive experiments were performed on yeast and human datasets, which obtained an accuracy rate of 91.45% and 93.12%, respectively. From our evaluations, the experimental results show that the use of amino acid semantics information is very helpful for addressing the problem of sequences containing both self-interacting and non-interacting pairs of proteins. This work would have potential applications for various biological classification problems. |
WOS记录号 | WOS:000502296000090 |
源URL | [http://ir.xjipc.cas.cn/handle/365002/7200] ![]() |
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)[ 1,2 ] |
作者单位 | 1.King Abdulaziz Univ, Dept Informat Syst, Jeddah 21589, Saudi Arabia 2.Univ Chinese Acad Sci, Beijing 100049, 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 | Chen, ZH ,You, ZH ,Zhang, WB ,et al. Global Vectors Representation of Protein Sequences and Its Application for Predicting Self-Interacting Proteins with Multi-Grained Cascade Forest Model[J]. GENES,2019,10(11):1-12. |
APA | Chen, ZH ,You, ZH ,Zhang, WB ,Wang, YB ,Cheng, L ,&Alghazzawi, D .(2019).Global Vectors Representation of Protein Sequences and Its Application for Predicting Self-Interacting Proteins with Multi-Grained Cascade Forest Model.GENES,10(11),1-12. |
MLA | Chen, ZH ,et al."Global Vectors Representation of Protein Sequences and Its Application for Predicting Self-Interacting Proteins with Multi-Grained Cascade Forest Model".GENES 10.11(2019):1-12. |
入库方式: OAI收割
来源:新疆理化技术研究所
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