准确和可解释的药物相互作用预测是知识子图学习所能实现的.
Yaqing Wang1, Zaifei Yang1,2, Quanming Yao3
1Baidu Research, Baidu Inc., Beijing, China.
Communications medicine
|March 29, 2024
概括
KnowDDI是一种新的图形神经网络方法,通过利用生物医学知识图表来改善药物相互作用 (DDI) 预测. 它有效地补偿了罕见的已知的DDI,使用丰富的药物表征和传播的相似性,实现最先进的结果.
科学领域:
- 计算生物学是一种计算生物学.
- 药理学 药理学是指药理学的学科.
- 人工智能的人工智能是人工智能.
背景情况:
- 预测药物相互作用 (DDI) 是至关重要的,但由于已知相互作用的稀有性而具有挑战性.
- 对于DDI预测的现有深度学习方法通常需要大量的数据,这是一个限制,因为已知的DDI稀缺.
研究的目的:
- 开发一种基于图形神经网络的新方法,即KnowDDI,用于准确和可解释的药物相互作用预测.
- 通过增强药物表示和利用生物医学知识图表来应对已知DDI有限的挑战.
主要方法:
- KnowDDI采用图形神经网络架构,通过整合来自大型生物医学知识图的信息来增强药物表示.
- 它为每个药物对构建了一个知识子图,以解释预测的DDI,边缘强度表明相互作用的重要性或相似性.
- 该方法通过丰富的药物表征和传播的药物相似性,隐含地弥补了已知的DDI的缺乏.
主要成果:
- 在两个基准DDI数据集上,KnowDDI实现了最先进的预测性能.
- 该方法在预测DDI方面表现出更好的解释性.
- 与现有方法相比,KnowDDI对较少的知识图表表表现出更大的弹性,突出了传播药物相似性的重要性.
结论:
- KnowDDI有效地将深度学习效率与用于DDI预测的生物医学图表的丰富知识相结合.
- 作为一个开源工具,KnowDDI可以应用于各种交互预测任务,推进生物医学和医疗保健.
- 该方法证明了利用外部知识的实用性,以克服预测建模中的数据限制.
相关概念视频
Agonism and Antagonism: Quantification
368
When drugs are administered, they can elicit either an agonist or antagonist effect on the body. Agonism occurs when a drug activates a specific receptor, triggering a biological response. On the other hand, antagonism happens when a drug binds to the same receptors but blocks their activation, thereby preventing a biological response.
To quantify these effects, researchers use a dose-response curve, which provides valuable information about the potency and efficacy of a drug. Potency refers to...
To quantify these effects, researchers use a dose-response curve, which provides valuable information about the potency and efficacy of a drug. Potency refers to...
368
Drug-Receptor Interactions
5.2K
Drug-receptor interaction describes the binding of receptors by drugs, but not all drug-receptor interactions result in activation and tissue response. For instance, the binding of agonists activates the receptor to generate a cellular reaction, while antagonists bind to receptors without causing their activation.
Several parameters, such as the drug's affinity for its receptor and its efficacy, which is its ability to activate the receptor, determine the drug's effect on the tissue....
Several parameters, such as the drug's affinity for its receptor and its efficacy, which is its ability to activate the receptor, determine the drug's effect on the tissue....
5.2K
Drug-Receptor Interaction: Antagonist
2.9K
An antagonist is a drug that binds strongly to a receptor without activating it. An antagonist prevents other molecules, such as neurotransmitters or hormones, from binding to the receptor and triggering a cellular response. Such interaction effectively hinders the normal physiological processes mediated by the receptor, resulting in various pharmacological effects depending on the specific receptor targeted.
Antagonists can be classified as competitive or noncompetitive based on their...
Antagonists can be classified as competitive or noncompetitive based on their...
2.9K
Protein-protein Interfaces
12.5K
Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. Most PPIs are stabilized by numerous weak noncovalent chemical forces. The physical shape of the interfaces determines the way two proteins interact. Many globular proteins have closely-matching shapes on their surfaces, which form a large number of weak bonds. Additionally, many PPIs occur between two helices or between a surface cleft and a...
12.5K
Pharmacokinetic Models: Overview
672
Pharmacokinetic models utilize mathematical analysis to achieve a detailed quantitative understanding of a drug's life cycle within the body. They are instrumental in simulating a drug's pharmacokinetic parameters, predicting drug concentrations over time, optimizing dosage regimens, linking concentrations with pharmacologic activity, and estimating potential toxicity.
There are three primary types of models: empirical, compartment, and physiological. Empirical models, with minimal...
There are three primary types of models: empirical, compartment, and physiological. Empirical models, with minimal...
672
Structure-Activity Relationships and Drug Design
716
Drug design is a dynamic field that involves discovering and developing new medications based on specific biological targets. This process heavily relies on structure-activity relationships (SAR) and quantitative structure-activity relationships (QSAR) to guide the design and optimization of efficient drugs.
SAR studies the intricate relationship between a drug's chemical structure and biological activity. It focuses on understanding how modifications to a drug's structure can influence...
SAR studies the intricate relationship between a drug's chemical structure and biological activity. It focuses on understanding how modifications to a drug's structure can influence...
716


