基于机器学习的 PtIV 化合物还原电位预测

IF 5.3 2区 化学 Q1 CHEMISTRY, MEDICINAL
V. Vigna*, T. F. G. G. Cova*, S. C. C. Nunes, A. A. C. C. Pais and E. Sicilia, 
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引用次数: 0

摘要

使用六配位的 PtIV 复合物作为惰性原药,可以克服临床认可的 PtII 复合物的一些众所周知的缺点,这种原药在被细胞还原剂还原时会释放出相应的四配位活性 PtII 物种。因此,PtIV 原药作用机制的关键因素是其被还原的倾向,当涉及的机制是外球型时,还原电位值是衡量这种倾向的标准。机器学习(ML)模型可用于有效捕捉 PtIV 复杂数据中的复杂关系,从而高精度地预测还原电位和其他性质,并为其电化学行为和潜在应用提供重要见解。本研究介绍了一种基于相关分子描述符的机器学习方法,用于预测 PtIV 复合物的还原电位。利用实验测定的还原电位数据集和各种分子描述符,所提出的模型显示出显著的预测准确性(MSE = 0.016 V2,RMSE = 0.13 V,R2 = 0.92)。为了系统地探索分子结构与相似性和还原潜力之间的关系,我们采用了 Ab initio 计算以及一系列不同的机器学习算法和特征工程技术。具体来说,我们研究了这些化合物的还原潜力是否可以通过结合不同的构型、拓扑和电子分子描述符的 ML 模型来描述。我们的研究结果不仅深入揭示了影响还原电位的关键因素,还为合理设计具有定制电化学特性的 PtIV 复合物提供了快速有效的工具,使其应用于制药领域。这种方法有望大大加快新型 PtIV 原药候选物的开发和筛选。对从模型中提取的主成分和关键特征的分析凸显了二维原子对类型和最低未占用分子轨道能的结构描述符的重要性。具体来说,只需适当选择 20 个描述符,就能根据还原电位值对复合物进行明显区分。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

Machine Learning-Based Prediction of Reduction Potentials for PtIV Complexes

Machine Learning-Based Prediction of Reduction Potentials for PtIV Complexes

Machine Learning-Based Prediction of Reduction Potentials for PtIV Complexes

Some of the well-known drawbacks of clinically approved PtII complexes can be overcome using six-coordinate PtIV complexes as inert prodrugs, which release the corresponding four-coordinate active PtII species upon reduction by cellular reducing agents. Therefore, the key factor of PtIV prodrug mechanism of action is their tendency to be reduced which, when the involved mechanism is of outer-sphere type, is measured by the value of the reduction potential. Machine learning (ML) models can be used to effectively capture intricate relationships within PtIV complex data, leading to highly accurate predictions of reduction potentials and other properties, and offering significant insights into their electrochemical behavior and potential applications. In this study, a machine learning-based approach for predicting the reduction potentials of PtIV complexes based on relevant molecular descriptors is presented. Leveraging a data set of experimentally determined reduction potentials and a diverse range of molecular descriptors, the proposed model demonstrates remarkable predictive accuracy (MSE = 0.016 V2, RMSE = 0.13 V, R2 = 0.92). Ab initio calculations and a set of different machine learning algorithms and feature engineering techniques have been employed to systematically explore the relationship between molecular structure and similarity and reduction potential. Specifically, it has been investigated whether the reduction potential of these compounds can be described by combining ML models across different combinations of constitutional, topological, and electronic molecular descriptors. Our results not only provide insights into the crucial factors influencing reduction potentials but also offer a rapid and effective tool for the rational design of PtIV complexes with tailored electrochemical properties for pharmaceutical applications. This approach has the potential to significantly expedite the development and screening of novel PtIV prodrug candidates. The analysis of principal components and key features extracted from the model highlights the significance of structural descriptors of the 2D Atom Pairs type and the lowest unoccupied molecular orbital energy. Specifically, with just 20 appropriately selected descriptors, a notable separation of complexes based on their reduction potential value is achieved.

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来源期刊
CiteScore
9.80
自引率
10.70%
发文量
529
审稿时长
1.4 months
期刊介绍: The Journal of Chemical Information and Modeling publishes papers reporting new methodology and/or important applications in the fields of chemical informatics and molecular modeling. Specific topics include the representation and computer-based searching of chemical databases, molecular modeling, computer-aided molecular design of new materials, catalysts, or ligands, development of new computational methods or efficient algorithms for chemical software, and biopharmaceutical chemistry including analyses of biological activity and other issues related to drug discovery. Astute chemists, computer scientists, and information specialists look to this monthly’s insightful research studies, programming innovations, and software reviews to keep current with advances in this integral, multidisciplinary field. As a subscriber you’ll stay abreast of database search systems, use of graph theory in chemical problems, substructure search systems, pattern recognition and clustering, analysis of chemical and physical data, molecular modeling, graphics and natural language interfaces, bibliometric and citation analysis, and synthesis design and reactions databases.
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