QSPR modeling to predict surface tension of psychoanaleptic drugs using the hybrid DA-SVR algorithm

IF 2.7 4区 生物学 Q2 BIOCHEMICAL RESEARCH METHODS
Meriem Ouaissa , Maamar Laidi , Othmane Benkortbi , Hasmerya Maarof
{"title":"QSPR modeling to predict surface tension of psychoanaleptic drugs using the hybrid DA-SVR algorithm","authors":"Meriem Ouaissa ,&nbsp;Maamar Laidi ,&nbsp;Othmane Benkortbi ,&nbsp;Hasmerya Maarof","doi":"10.1016/j.jmgm.2024.108896","DOIUrl":null,"url":null,"abstract":"<div><div>A robust Quantitative Structure-Property Relationship (QSPR) model was presented to predict the surface tension property of psychoanaleptic (psychostimulant and antidepressant) drugs. A dataset of 112 molecules was utilized, and three feature selection methods were applied: genetic algorithm combined with Ordinary Least Squares (GA-OLS), Partial Least Squares (GA-PLS), and Support Vector Machines (GA-SVM), each identifying ten pertinent AlvaDesc descriptors. The models were constructed using the Dragonfly Algorithm combined with the Support Vector Regressor (DA-SVR), with the GA-SVM-based model emerging as the top performer. Rigorous statistical metrics validate its superior predictive accuracy (<em>R</em><sup><em>2</em></sup> = 0.98142, <em>Q</em><sup><em>2</em></sup><sub><em>LOO</em></sub> = 0.98142, <em>RMSE</em> = 1.12836, <em>AARD</em> = 0.78746). Furthermore, an external test set of ten compounds was employed for model validation and extrapolation, along with assessing the applicability domain, further underscoring the model’s reliability. The selected descriptors (X0Av, VE1sign_B(e), ATSC1e, MATS6v, P_VSA_ppp_A, TDB01u, E1s, R2m+, N-067, SssO) collectively elucidate the key structural factors influencing surface tension in the studied drugs. The model provides excellent predictions and can be used to determine the surface tension of new psychoanaleptic drugs. Its outcomes will guide the design of novel medications with targeted surface tension properties.</div></div>","PeriodicalId":16361,"journal":{"name":"Journal of molecular graphics & modelling","volume":"134 ","pages":"Article 108896"},"PeriodicalIF":2.7000,"publicationDate":"2024-10-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of molecular graphics & modelling","FirstCategoryId":"99","ListUrlMain":"https://www.sciencedirect.com/science/article/pii/S1093326324001967","RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"BIOCHEMICAL RESEARCH METHODS","Score":null,"Total":0}
引用次数: 0

Abstract

A robust Quantitative Structure-Property Relationship (QSPR) model was presented to predict the surface tension property of psychoanaleptic (psychostimulant and antidepressant) drugs. A dataset of 112 molecules was utilized, and three feature selection methods were applied: genetic algorithm combined with Ordinary Least Squares (GA-OLS), Partial Least Squares (GA-PLS), and Support Vector Machines (GA-SVM), each identifying ten pertinent AlvaDesc descriptors. The models were constructed using the Dragonfly Algorithm combined with the Support Vector Regressor (DA-SVR), with the GA-SVM-based model emerging as the top performer. Rigorous statistical metrics validate its superior predictive accuracy (R2 = 0.98142, Q2LOO = 0.98142, RMSE = 1.12836, AARD = 0.78746). Furthermore, an external test set of ten compounds was employed for model validation and extrapolation, along with assessing the applicability domain, further underscoring the model’s reliability. The selected descriptors (X0Av, VE1sign_B(e), ATSC1e, MATS6v, P_VSA_ppp_A, TDB01u, E1s, R2m+, N-067, SssO) collectively elucidate the key structural factors influencing surface tension in the studied drugs. The model provides excellent predictions and can be used to determine the surface tension of new psychoanaleptic drugs. Its outcomes will guide the design of novel medications with targeted surface tension properties.

Abstract Image

利用 DA-SVR 混合算法建立 QSPR 模型,预测精神药物的表面张力。
本文提出了一种稳健的定量结构-性质关系(QSPR)模型,用于预测精神药物(精神刺激剂和抗抑郁药)的表面张力性质。研究利用了一个包含 112 种分子的数据集,并采用了三种特征选择方法:遗传算法结合普通最小二乘法(GA-OLS)、部分最小二乘法(GA-PLS)和支持向量机(GA-SVM),每种方法都能识别 10 个相关的 AlvaDesc 描述子。这些模型是使用蜻蜓算法结合支持向量调节器(DA-SVR)构建的,其中基于 GA-SVM 的模型表现最佳。严格的统计指标验证了其卓越的预测准确性(R2 = 0.98142,Q2LOO = 0.98142,RMSE = 1.12836,AARD = 0.78746)。此外,还采用了由 10 个化合物组成的外部测试集来验证和推断模型,同时评估了适用性领域,进一步强调了模型的可靠性。所选描述符(X0Av、VE1sign_B(e)、ATSC1e、MATS6v、P_VSA_ppp_A、TDB01u、E1s、R2m+、N-067、SssO)共同阐明了影响所研究药物表面张力的关键结构因素。该模型提供了很好的预测,可用于确定新型精神药物的表面张力。其结果将为设计具有针对性表面张力特性的新型药物提供指导。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
求助全文
约1分钟内获得全文 求助全文
来源期刊
Journal of molecular graphics & modelling
Journal of molecular graphics & modelling 生物-计算机:跨学科应用
CiteScore
5.50
自引率
6.90%
发文量
216
审稿时长
35 days
期刊介绍: The Journal of Molecular Graphics and Modelling is devoted to the publication of papers on the uses of computers in theoretical investigations of molecular structure, function, interaction, and design. The scope of the journal includes all aspects of molecular modeling and computational chemistry, including, for instance, the study of molecular shape and properties, molecular simulations, protein and polymer engineering, drug design, materials design, structure-activity and structure-property relationships, database mining, and compound library design. As a primary research journal, JMGM seeks to bring new knowledge to the attention of our readers. As such, submissions to the journal need to not only report results, but must draw conclusions and explore implications of the work presented. Authors are strongly encouraged to bear this in mind when preparing manuscripts. Routine applications of standard modelling approaches, providing only very limited new scientific insight, will not meet our criteria for publication. Reproducibility of reported calculations is an important issue. Wherever possible, we urge authors to enhance their papers with Supplementary Data, for example, in QSAR studies machine-readable versions of molecular datasets or in the development of new force-field parameters versions of the topology and force field parameter files. Routine applications of existing methods that do not lead to genuinely new insight will not be considered.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
copy
已复制链接
快去分享给好友吧!
我知道了
右上角分享
点击右上角分享
0
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术官方微信