A Novel Method to Predict Drug-Target Interactions Based on Large-Scale Graph Representation Learning
Zhao, BW (Zhao, Bo-Wei) 1 , 2 , 3; You, ZH (You, Zhu-Hong) 1 , 2 , 3; Hu, L (Hu, Lun) 1 , 2 , 3; Guo, ZH (Guo, Zhen-Hao) 1 , 2 , 3; Wang, L (Wang, Lei) 1 , 2 , 3; Chen, ZH (Chen, Zhan-Heng) 4; Wong, L (Wong, Leon) 1 , 2 , 3
刊名CANCERS
2021
卷号13期号:9页码:1-12
关键词drug discoverydrug-target interactionslarge-scale graph representation learningcomputational method
ISSN号2072-6694
DOI10.3390/cancers13092111
英文摘要

Simple Summary The traditional process of drug development is lengthy, time-consuming, and costly, whereas very few drugs ever make it to the clinic. The use of computational methods to detect drug side effects greatly reduces the deficiencies in drug clinical trials. Prediction of drug-target interactions is a key step in drug discovery and repositioning. In this article, we proposed a novel method for the prediction of drug-target interactions based on large-scale graph representation learning. This method can be helpful to researchers in clinical trials and drug research and development. Identification of drug-target interactions (DTIs) is a significant step in the drug discovery or repositioning process. Compared with the time-consuming and labor-intensive in vivo experimental methods, the computational models can provide high-quality DTI candidates in an instant. In this study, we propose a novel method called LGDTI to predict DTIs based on large-scale graph representation learning. LGDTI can capture the local and global structural information of the graph. Specifically, the first-order neighbor information of nodes can be aggregated by the graph convolutional network (GCN); on the other hand, the high-order neighbor information of nodes can be learned by the graph embedding method called DeepWalk. Finally, the two kinds of feature are fed into the random forest classifier to train and predict potential DTIs. The results show that our method obtained area under the receiver operating characteristic curve (AUROC) of 0.9455 and area under the precision-recall curve (AUPR) of 0.9491 under 5-fold cross-validation. Moreover, we compare the presented method with some existing state-of-the-art methods. These results imply that LGDTI can efficiently and robustly capture undiscovered DTIs. Moreover, the proposed model is expected to bring new inspiration and provide novel perspectives to relevant researchers.

WOS记录号WOS:000649882900001
内容类型期刊论文
源URL[http://ir.xjipc.cas.cn/handle/365002/7858]  
专题新疆理化技术研究所_多语种信息技术研究室
作者单位1.Shenzhen Univ, Coll Comp Sci & Software Engn, Shenzhen 518060, Peoples R China
2.Xinjiang Lab Minor Speech & Language Informat Pro, Urumqi 830011, Peoples R China
3.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
4.Chinese Acad Sci, Xinjiang Tech Inst Phys & Chem, Urumqi 830011, Peoples R China
推荐引用方式
GB/T 7714
Zhao, BW ,You, ZH ,Hu, L ,et al. A Novel Method to Predict Drug-Target Interactions Based on Large-Scale Graph Representation Learning[J]. CANCERS,2021,13(9):1-12.
APA Zhao, BW .,You, ZH .,Hu, L .,Guo, ZH .,Wang, L .,...&Wong, L .(2021).A Novel Method to Predict Drug-Target Interactions Based on Large-Scale Graph Representation Learning.CANCERS,13(9),1-12.
MLA Zhao, BW ,et al."A Novel Method to Predict Drug-Target Interactions Based on Large-Scale Graph Representation Learning".CANCERS 13.9(2021):1-12.
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