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CHL-DTI: A Novel High–Low Order Information Convergence Framework for Effective Drug–Target Interaction Prediction

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Abstract

Recognizing drug–target interactions (DTI) stands as a pivotal element in the expansive field of drug discovery. Traditional biological wet experiments, although valuable, are time-consuming and costly as methods. Recently, computational methods grounded in network learning have demonstrated great advantages by effective topological feature extraction and attracted extensive research attention. However, most existing network-based learning methods only consider the low-order binary correlation between individual drug and target, neglecting the potential higher-order correlation information derived from multiple drugs and targets. High-order information, as an essential component, exhibits complementarity with low-order information. Hence, the incorporation of higher-order associations between drugs and targets, while adequately integrating them with the existing lower-order information, could potentially yield substantial breakthroughs in predicting drug–target interactions. We propose a novel dual channels network-based learning model CHL-DTI that converges high-order information from hypergraphs and low-order information from ordinary graph for drug–target interaction prediction. The convergence of high–low order information in CHL-DTI is manifested in two key aspects. First, during the feature extraction stage, the model integrates both high-level semantic information and low-level topological information by combining hypergraphs and ordinary graph. Second, CHL-DTI fully fuse the innovative introduced drug–protein pairs (DPP) hypergraph network structure with ordinary topological network structure information. Extensive experimentation conducted on three public datasets showcases the superior performance of CHL-DTI in DTI prediction tasks when compared to SOTA methods. The source code of CHL-DTI is available at https://github.com/UPCLyy/CHL-DTI.

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Data availability

The source code and data are available at https://github.com/UPCLyy/CHL-DTI.

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Funding

National Key Research and Development Project of China, 2021YFA1000102, National Natural Science Foundation of China, 61902430, Yuanyuan Zhang.

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Authors and Affiliations

  1. College of Computer Science and Technology, China University of Petroleum (East China), Qingdao, 266580, China

    Shudong Wang, Yingye Liu, Kuijie Zhang, Xuanmo Song, Yu Zhang & Shanchen Pang

  2. College of Information and Control Engineering, Qingdao University of Technology, Qingdao, 266520, China

    Yuanyuan Zhang

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  1. Shudong Wang
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  2. Yingye Liu
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  4. Kuijie Zhang
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Correspondence to Yuanyuan Zhang.

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Wang, S., Liu, Y., Zhang, Y. et al. CHL-DTI: A Novel High–Low Order Information Convergence Framework for Effective Drug–Target Interaction Prediction. Interdiscip Sci Comput Life Sci (2024). https://doi.org/10.1007/s12539-024-00608-z

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