IIB-DDI: Invariant Information Bottleneck Theory for Out-of-Distribution Drug-Drug Interaction Prediction

Rapid and accurate identification of drug-drug interactions (DDIs) among multiple medications is crucial for various medical treatments, and clinical therapies. Currently, the increasing significance of molecular substructure interactions in DDI prediction has become a consensus. However, due to the uneven distribution of substructures in molecules and most methods do not consider the differences in substructure distributions, models may rely on spurious substructure relationships, thereby weakening their out-of-distribution (OOD) generalization ability. To address this challenge, we propose an OOD-DDI framework called IIB-DDI. Specifically, information bottleneck theory is initially utilized to extract core subgraphs of drug pairs. Then, considering the diversity and unknown nature of environments, we introduce the vector quantization to design an environment codebook, where the potential environments in the dataset are clustered into a specified number of categories. Subsequently, we position the extracted core subgraphs under various latent environmental factors to attain invariant core substructures (rationales). Additionally, the learned environmental distribution also could be acted as noise injection for optimizing mutual information, achieving a smoother and more stable training curve, thereby leading to lower loss. Extensive experiments conducted on real-world DDI datasets demonstrate the superiority of our model over state-of-the-art baselines.

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Publication Details

Journal
IEEE Transactions on Computational Biology and Bioinformatics
Published
2025-02-20
DOI
https://doi.org/10.1109/tcbbio.2025.3543884
Primary Topic
Computational Drug Discovery Methods
Type
article
Field-Weighted Citation Impact
0.00

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article

IIB-DDI: Invariant Information Bottleneck Theory for Out-of-Distribution Drug-Drug Interaction Prediction

Di Wu, Xuqiang Li, Jiahui Zhang, Limin Li et al.
1 links
IEEE Transactions on Computational Biology and Bioinformatics
Computational Drug Discovery Methods
article

IIB-DDI: Invariant Information Bottleneck Theory for Out-of-Distribution Drug-Drug Interaction Prediction

Di Wu, Xuqiang Li, Jiahui Zhang, Limin Li, Yang Wang, Sihan Wang, Shuai Zhang, Wenjie Du
article en

Abstract

Rapid and accurate identification of drug-drug interactions (DDIs) among multiple medications is crucial for various medical treatments, and clinical therapies. Currently, the increasing significance of molecular substructure interactions in DDI prediction has become a consensus. However, due to the uneven distribution of substructures in molecules and most methods do not consider the differences in substructure distributions, models may rely on spurious substructure relationships, thereby weakening their out-of-distribution (OOD) generalization ability. To address this challenge, we propose an OOD-DDI framework called IIB-DDI. Specifically, information bottleneck theory is initially utilized to extract core subgraphs of drug pairs. Then, considering the diversity and unknown nature of environments, we introduce the vector quantization to design an environment codebook, where the potential environments in the dataset are clustered into a specified number of categories. Subsequently, we position the extracted core subgraphs under various latent environmental factors to attain invariant core substructures (rationales). Additionally, the learned environmental distribution also could be acted as noise injection for optimizing mutual information, achieving a smoother and more stable training curve, thereby leading to lower loss. Extensive experiments conducted on real-world DDI datasets demonstrate the superiority of our model over state-of-the-art baselines.

IEEE Transactions on Computational Biology and BioinformaticsVol. 22(3)
University of Science and Technology of China (CN)
National Natural Science Foundation of China, Natural Science Foundation of Jiangsu Province, Basic Research Program of Jiangsu Province
Zero hunger
Openalex Percentile: Top 96%
Computational Drug Discovery Methods
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