AMGDTI: drug–target interaction prediction based on adaptive meta-graph learning in heterogeneous network

Prediction of drug–target interactions (DTIs) is essential in medicine field, since it benefits the identification of molecular structures potentially interacting with drugs and facilitates the discovery and reposition of drugs. Recently, much attention has been attracted to network representation l...

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Vydáno v:Briefings in bioinformatics Ročník 25; číslo 1
Hlavní autoři: Su, Yansen, Hu, Zhiyang, Wang, Fei, Bin, Yannan, Zheng, Chunhou, Li, Haitao, Chen, Haowen, Zeng, Xiangxiang
Médium: Journal Article
Jazyk:angličtina
Vydáno: England Oxford Publishing Limited (England) 01.01.2024
Oxford University Press
Témata:
Algorithms
Drug discovery
Drugs
Learning
Machine learning
Molecular structure
Network topologies
Predictions
Problem Solving Protocol
Representations
Semantics
Topology
adaptive meta-graph
drug–target interaction
graph convolutional networks
heterogeneous network
ISSN:1467-5463, 1477-4054, 1477-4054
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Shrnutí:Prediction of drug–target interactions (DTIs) is essential in medicine field, since it benefits the identification of molecular structures potentially interacting with drugs and facilitates the discovery and reposition of drugs. Recently, much attention has been attracted to network representation learning to learn rich information from heterogeneous data. Although network representation learning algorithms have achieved success in predicting DTI, several manually designed meta-graphs limit the capability of extracting complex semantic information. To address the problem, we introduce an adaptive meta-graph-based method, termed AMGDTI, for DTI prediction. In the proposed AMGDTI, the semantic information is automatically aggregated from a heterogeneous network by training an adaptive meta-graph, thereby achieving efficient information integration without requiring domain knowledge. The effectiveness of the proposed AMGDTI is verified on two benchmark datasets. Experimental results demonstrate that the AMGDTI method overall outperforms eight state-of-the-art methods in predicting DTI and achieves the accurate identification of novel DTIs. It is also verified that the adaptive meta-graph exhibits flexibility and effectively captures complex fine-grained semantic information, enabling the learning of intricate heterogeneous network topology and the inference of potential drug–target relationship.
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ISSN:1467-5463
1477-4054
1477-4054
DOI:10.1093/bib/bbad474