Suppr超能文献

应用于药物和绿色化学发现的计算毒理学方法概述。

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

作者信息

Bueso-Bordils Jose I, Antón-Fos Gerardo M, Martín-Algarra Rafael, Alemán-López Pedro A

机构信息

Pharmacy Department, CEU Cardenal Herrera University, CEU Universities C/Ramón y Cajal s/n, Alfara del Patriarca, 46115 Valencia, Spain.

出版信息

J Xenobiot. 2024 Dec 4;14(4):1901-1918. doi: 10.3390/jox14040101.

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.

摘要

在计算化学领域,可以快速且低成本地构建计算机模型来预测毒理学危害和结果,无需测试材料或动物,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)的计算机模拟评估。本综述介绍了计算毒理学的发展,重点关注机器学习和深度学习,并强调它们在毒理学领域的重要性。在发现潜在新药时,应在目标效力、选择性、吸收、分布、代谢、排泄、毒性(ADMET)和临床安全性之间实现良好平衡。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,有许多商业可用的和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。还概述了定量构效关系(QSAR)方法的关键特征,选择合适的物理化学描述符是进行可靠预测的先决条件。此外,还包括应用于毒性预测的开源工具示例,以及不同计算方法在药物设计和环境毒理学中预测毒性的应用示例。

相似文献

1
Overview of Computational Toxicology Methods Applied in Drug and Green Chemical Discovery.
J Xenobiot. 2024 Dec 4;14(4):1901-1918. doi: 10.3390/jox14040101.
3
Machine Learning for In Silico ADMET Prediction.
Methods Mol Biol. 2022;2390:447-460. doi: 10.1007/978-1-0716-1787-8_20.
4
vNN Web Server for ADMET Predictions.
Front Pharmacol. 2017 Dec 4;8:889. doi: 10.3389/fphar.2017.00889. eCollection 2017.
5
Advancing Computational Toxicology by Interpretable Machine Learning.
Environ Sci Technol. 2023 Nov 21;57(46):17690-17706. doi: 10.1021/acs.est.3c00653. Epub 2023 May 24.
6
From QSAR to QSIIR: searching for enhanced computational toxicology models.
Methods Mol Biol. 2013;930:53-65. doi: 10.1007/978-1-62703-059-5_3.
7
A review on machine learning approaches and trends in drug discovery.
Comput Struct Biotechnol J. 2021 Aug 12;19:4538-4558. doi: 10.1016/j.csbj.2021.08.011. eCollection 2021.
8
QSAR Methods.
Methods Mol Biol. 2022;2425:1-26. doi: 10.1007/978-1-0716-1960-5_1.
9
Machine Learning in Predictive Toxicology: Recent Applications and Future Directions for Classification Models.
Chem Res Toxicol. 2021 Feb 15;34(2):217-239. doi: 10.1021/acs.chemrestox.0c00316. Epub 2020 Dec 23.

引用本文的文献

1
From molecules to data: the emerging impact of chemoinformatics in chemistry.
J Cheminform. 2025 Aug 7;17(1):121. doi: 10.1186/s13321-025-00978-6.

本文引用的文献

1
Molecular designing of potential environmentally friendly PFAS based on deep learning and generative models.
Sci Total Environ. 2024 Nov 25;953:176095. doi: 10.1016/j.scitotenv.2024.176095. Epub 2024 Sep 6.
3
Predicting Chemical Immunotoxicity through Data-Driven QSAR Modeling of Aryl Hydrocarbon Receptor Agonism and Related Toxicity Mechanisms.
Environ Health (Wash). 2024 May 28;2(7):474-485. doi: 10.1021/envhealth.4c00026. eCollection 2024 Jul 19.
5
Artificial intelligence (AI)-it's the end of the tox as we know it (and I feel fine).
Arch Toxicol. 2024 Mar;98(3):735-754. doi: 10.1007/s00204-023-03666-2. Epub 2024 Jan 20.
7
A benchmark dataset for machine learning in ecotoxicology.
Sci Data. 2023 Oct 18;10(1):718. doi: 10.1038/s41597-023-02612-2.
8
ADME/tox comes of age: twenty years later.
Xenobiotica. 2024 Jul;54(7):352-358. doi: 10.1080/00498254.2023.2245049. Epub 2023 Aug 8.
9
Artificial intelligence and cheminformatics tools: a contribution to the drug development and chemical science.
J Biomol Struct Dyn. 2024 Aug;42(12):6523-6541. doi: 10.1080/07391102.2023.2234039. Epub 2023 Jul 11.
10
New approach methodologies in human regulatory toxicology - Not if, but how and when!
Environ Int. 2023 Aug;178:108082. doi: 10.1016/j.envint.2023.108082. Epub 2023 Jul 4.

文献AI研究员

20分钟写一篇综述,助力文献阅读效率提升50倍。

立即体验

用中文搜PubMed

大模型驱动的PubMed中文搜索引擎

马上搜索

文档翻译

学术文献翻译模型,支持多种主流文档格式。

立即体验