DAS-DDI:用于药物相互作用预测的药物关联和药物结构双视角框架。

IF 4 2区 医学 Q2 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Journal of Biomedical Informatics Pub Date : 2024-06-09 DOI:10.1016/j.jbi.2024.104672
Dongjiang Niu, Lianwei Zhang, Beiyi Zhang, Qiang Zhang, Zhen Li
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引用次数: 0

摘要

在药物开发和临床应用中,药物相互作用(DDI)预测对患者安全和疗效至关重要。然而,传统的 DDI 预测方法往往忽略了药物的结构特征以及它们之间复杂的相互关系,从而影响了模型的准确性和可解释性。本文提出了一种新颖的双视角 DDI 预测框架 DAS-DDI。首先,基于药物间的相似性信息构建了药物关联网络,为 DDI 预测提供了丰富的上下文信息。随后,提出了一种新颖的药物亚结构提取方法,该方法可以同时更新节点和化学键的特征,提高了特征的全面性。此外,还采用了一种注意力机制来动态融合来自不同视图的多个药物嵌入,从而提高了模型处理多视图数据的判别能力。在三个公开数据集上进行的对比实验表明,在两种情况下,DAS-DDI 与其他最先进的模型相比更具优势。
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DAS-DDI: A dual-view framework with drug association and drug structure for drug–drug interaction prediction

In drug development and clinical application, drug–drug interaction (DDI) prediction is crucial for patient safety and therapeutic efficacy. However, traditional methods for DDI prediction often overlook the structural features of drugs and the complex interrelationships between them, which affect the accuracy and interpretability of the model. In this paper, a novel dual-view DDI prediction framework, DAS-DDI is proposed. Firstly, a drug association network is constructed based on similarity information among drugs, which could provide rich context information for DDI prediction. Subsequently, a novel drug substructure extraction method is proposed, which could update the features of nodes and chemical bonds simultaneously, improving the comprehensiveness of the feature. Furthermore, an attention mechanism is employed to fuse multiple drug embeddings from different views dynamically, enhancing the discriminative ability of the model in handling multi-view data. Comparative experiments on three public datasets demonstrate the superiority of DAS-DDI compared with other state-of-the-art models under two scenarios.

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来源期刊
Journal of Biomedical Informatics
Journal of Biomedical Informatics 医学-计算机:跨学科应用
CiteScore
8.90
自引率
6.70%
发文量
243
审稿时长
32 days
期刊介绍: The Journal of Biomedical Informatics reflects a commitment to high-quality original research papers, reviews, and commentaries in the area of biomedical informatics methodology. Although we publish articles motivated by applications in the biomedical sciences (for example, clinical medicine, health care, population health, and translational bioinformatics), the journal emphasizes reports of new methodologies and techniques that have general applicability and that form the basis for the evolving science of biomedical informatics. Articles on medical devices; evaluations of implemented systems (including clinical trials of information technologies); or papers that provide insight into a biological process, a specific disease, or treatment options would generally be more suitable for publication in other venues. Papers on applications of signal processing and image analysis are often more suitable for biomedical engineering journals or other informatics journals, although we do publish papers that emphasize the information management and knowledge representation/modeling issues that arise in the storage and use of biological signals and images. System descriptions are welcome if they illustrate and substantiate the underlying methodology that is the principal focus of the report and an effort is made to address the generalizability and/or range of application of that methodology. Note also that, given the international nature of JBI, papers that deal with specific languages other than English, or with country-specific health systems or approaches, are acceptable for JBI only if they offer generalizable lessons that are relevant to the broad JBI readership, regardless of their country, language, culture, or health system.
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