Overview of Computational Toxicology Methods Applied in Drug and Green Chemical Discovery.

IF 6.8 Q1 TOXICOLOGY Journal of Xenobiotics Pub Date : 2024-12-04 DOI:10.3390/jox14040101
Jose I Bueso-Bordils, Gerardo M Antón-Fos, Rafael Martín-Algarra, Pedro A Alemán-López
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Abstract

In the field of computational chemistry, computer models are quickly and cheaply constructed to predict toxicology hazards and results, with no need for test material or animals as these computational predictions are often based on physicochemical properties of chemical structures. Multiple methodologies are employed to support in silico assessments based on machine learning (ML) and deep learning (DL). This review introduces the development of computational toxicology, focusing on ML and DL and emphasizing their importance in the field of toxicology. A fine balance between target potency, selectivity, absorption, distribution, metabolism, excretion, toxicity (ADMET) and clinical safety properties should be achieved to discover a potential new drug. It is advantageous to perform virtual predictions as early as possible in drug development processes, even before a molecule is synthesized. Currently, there are numerous commercially available and free web-based programs for toxicity prediction, which can be used to construct various predictive models. The key features of the QSAR method are also outlined, and the selection of appropriate physicochemical descriptors is a prerequisite for robust predictions. In addition, examples of open-source tools applied to toxicity prediction are included, as well as examples of the application of different computational methods for the prediction of toxicity in drug design and environmental toxicology.

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计算毒理学方法在药物和绿色化学发现中的应用综述。
在计算化学领域,计算机模型可以快速而廉价地构建来预测毒理学危害和结果,而不需要测试材料或动物,因为这些计算预测通常基于化学结构的物理化学性质。采用多种方法来支持基于机器学习(ML)和深度学习(DL)的计算机评估。本文介绍了计算毒理学的发展,重点介绍了ML和DL,并强调了它们在毒理学领域的重要性。要发现一种潜在的新药,必须在靶标效价、选择性、吸收、分布、代谢、排泄、毒性(ADMET)和临床安全性之间取得良好的平衡。在药物开发过程中,甚至在分子合成之前,尽早进行虚拟预测是有利的。目前,市面上有许多免费的基于网络的毒性预测程序,可用于构建各种预测模型。本文还概述了QSAR方法的关键特征,选择适当的物理化学描述符是进行稳健预测的先决条件。此外,还包括应用于毒性预测的开源工具的示例,以及在药物设计和环境毒理学中应用不同计算方法预测毒性的示例。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
CiteScore
5.30
自引率
1.70%
发文量
21
审稿时长
10 weeks
期刊介绍: The Journal of Xenobiotics publishes original studies concerning the beneficial (pharmacology) and detrimental effects (toxicology) of xenobiotics in all organisms. A xenobiotic (“stranger to life”) is defined as a chemical that is not usually found at significant concentrations or expected to reside for long periods in organisms. In addition to man-made chemicals, natural products could also be of interest if they have potent biological properties, special medicinal properties or that a given organism is at risk of exposure in the environment. Topics dealing with abiotic- and biotic-based transformations in various media (xenobiochemistry) and environmental toxicology are also of interest. Areas of interests include the identification of key physical and chemical properties of molecules that predict biological effects and persistence in the environment; the molecular mode of action of xenobiotics; biochemical and physiological interactions leading to change in organism health; pathophysiological interactions of natural and synthetic chemicals; development of biochemical indicators including new “-omics” approaches to identify biomarkers of exposure or effects for xenobiotics.
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