QSPR

QSPR
  • 文章类型: Journal Article
    多环芳烃(PAHs)及其卤代衍生物(X-PAHs),通常由母体PAHs的光化学和热反应产生,广泛存在于环境中。它们是半挥发性有机化学品(SVOCs),气体/颗粒相之间的分配会影响其环境迁移,转型与命运,这进一步影响了它们对人类的毒性和健康风险。然而,大气颗粒物相(f)的实验分布比缺少大量数据,尤其是X-PAHs.在这项研究中,我们首先检查了53个PAH衍生物的实验f值与其辛醇-空气分配系数(logKOA)之间的相关性,常用于表征有机相中化学物质的分布,并且得到R2=0.803。然后,从M06-2X/6-311+G的分子结构优化中得出的量子化学描述符(d,p)方法进一步用于建立定量结构-性质关系(QSPR)模型。该模型包含两个描述符,平均分子极化率(α)和分子静电势的平衡参数(τ),并且在R2=0.846和RMSE=0.122的情况下产生更好的性能。通过不同策略的机理分析和验证结果证明,该模型可以揭示主导气相和颗粒相之间分布的分子性质,并且可以用于预测其他PAHs/X-PAHs的f值。为其环境生态风险评价提供基础数据。
    Polycyclic aromatic hydrocarbons (PAHs) and their halogenated derivatives (X-PAHs), which generally produced from photochemical and thermal reactions of parent PAHs, widely exist in the environment. They are semi-volatile organic chemicals (SVOCs) and the partitioning between gas/particulate phases affects their environmental migration, transformation and fate, which further impacts their toxicity and health risk to human. However, there is a large data missing of the experimental distribution ratio in the atmospheric particulate phase (f), especially for X-PAHs. In this study, we first checked the correlation between experimental f values of 53 PAH derivatives and their octanol-air partitioning coefficients (log KOA), which is frequently used to characterize the distribution of chemicals in organic phase, and yielded R2 = 0.803. Then, quantum chemical descriptors derived from molecular structural optimization by M06-2X/6-311 +G (d,p) method were further employed to develop Quantitative Structure-Property Relationship (QSPR) model. The model contains two descriptors, the average molecular polarizability (α) and the equilibrium parameter of molecular electrostatic potential (τ), and yields better performance with R2 = 0.846 and RMSE = 0.122. The mechanism analysis and validation results by different strategies prove that the model can reveal the molecular properties that dominate the distribution between gas and particulate phases and it can be used to predict f values of other PAHs/X-PAHs, providing basic data for their environmental ecological risk assessment.
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  • 文章类型: Journal Article
    偶氮染料由于其化学稳定性和易于合成而广泛用于不同的工业中。然而,这些染料通常被认为是关键的环境污染物。因此,偶氮染料吸附亲和力的数学模型可用于解决医学和生态学的任务。偶氮染料对底物的吸附亲和力的定量结构-性质关系(DAF,kJ/mol)是使用蒙特卡罗方法通过生成基于SMILES的最优描述符来建立的。理想相关指数(IIC)和相关强度指数(CII)提高了模型的预测潜力,特别是当它们同时使用时。验证集上最佳模型的统计质量表征为n=18,r2=0.9468,RMSE=1.26kJ/mol。
    Azo dyes are broadly used in different industries through their chemical stability and ease of synthesis. However, these dyes are usually identified as critical environmental pollutants. Hence, a mathematical model for the adsorption affinity of azo dyes can be applied for solving tasks of medicine and ecology. Quantitative structure-property relationships for the adsorption affinity of azo dyes to a substrate (DAF, kJ/mol) were established using the Monte Carlo method by generating optimal SMILES-based descriptors. The index of ideality of correlation (IIC) and the correlation intensity index (CII) improved the model\'s predictive potential, especially when they were used simultaneously. The statistical quality of the best model on the validation set was characterized by n = 18, r2 = 0.9468, and RMSE = 1.26 kJ/mol.
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  • 文章类型: Journal Article
    任何打算在欧洲销售的具有植物检疫能力的活性物质,必须通过详尽的控制措施,以评估其风险,然后才能在欧洲农业中销售和使用。自法规(EC)No1107/2009实施以来,农用化学品公司有义务研究在处理含有农药残留的饮用水过程中农药转化产品(TP)的形成。然而,关于如何解决这一要求没有共识。在这项研究工作中,关于alloxydim的公开文献收集用于提出来自alloxydim异构体的潜在氯化途径。此外,几个QSAR/QSPR模型已经被用来填补知识空白相对于一些关键参数在物理化学,来自氯化水的潜在异源酶TP的环境和生态毒理学领域,几乎没有信息。这样,有可能估计这些TP的聚集状态(它们主要以液体形式存在)以及它们在不同阶段之间运输的难易程度,预测它们在三个环境隔室中的可能行为(例如,热物理性质表明它们相对于母体alloxydim异构体的进化发生变化),并预测它们对人类和动物健康的潜在风险(例如,它们都会引起发育毒性)。这些和其他结果突出表明,几种TP的危害,即,无论是氯化的和非氯化的从母体alloxydim或从获得的裂解后的N-O键和随后的与氯的反应,应该认真考虑。所获得的结果重新引发了关于在立法框架中使用QSAR/QSPR模型进行农药风险评估的意义的辩论。
    Any active substance with phytosanitary capacity intended to be marketed in Europe must pass exhaustive controls to assess its risk before being marketed and used in European agriculture. Since the implementation of Regulation (EC) No 1107/2009, agrochemical companies have been obliged to study the formation of pesticide transformation products (TPs) during the treatment of drinking water containing pesticide residues. However, there is no consensus on how to address this requirement. In this research work, the open literature collection on alloxydim was used to propose potential chlorination paths from alloxydim isomers. Furthermore, several QSAR/QSPR models have been used to fill the of knowledge gap relative to some key parameters in the physico-chemical, environmental and ecotoxicological areas of potential alloxydim TPs from chlorinated water for which little information exists. In this way, it has been possible to estimate the state of aggregation of these TPs (they exist mainly as liquids) as well as their ease of transit between the different phases, to predict their possible behaviour in the three environmental compartments (e.g., thermophysical properties point to a change in their evolution with respect to the parent alloxydim isomers) and to anticipate their potential risk to human and animal health (e.g., all of them cause developmental toxicity). These and other results highlight that the hazards of several TPs, i.e., both chlorinated and nonchlorinated from parent alloxydim or from those obtained after cleavage of the N - O bond and the subsequent reaction with chlorine, should be seriously considered. The obtained results reopen the debate on the implications of the use of QSAR/QSPR models for pesticide risk assessment in the legislative framework.
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  • 文章类型: Journal Article
    Commercial oleogelators rich in monoglycerides (MGs) are complex mixtures of acylglycerides with variable gelling properties, depending on the oil used and their concentration. In this study we developed a chemometric approach to identify the key parameters involved in gelling process. Analytical parameters have been defined, using GC and NMR analysis to identify fatty acids and acylglycerides composing the mixtures. Specific acylglyceride families and compound ratios were calculated to streamline the analytical results. To determine the key analytical parameters, artificial neural networks were used in a QSPR study related to the gelling properties measured by rheology through oscillatory experiments. At low oleogelator concentrations, the MGs especially rich in C16:0 and the ratio of specific isomers both have a positive influence on G\'. For high oleogelator concentrations, C18:0-rich acylglycerides and unsaturated/saturated fatty acid ratios have a positive influence on G\'. Conversely, at low concentrations, C18:0-rich acylglycerides show a lesser effect on G\'.
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  • 文章类型: Journal Article
    Predicting the activities and properties of materials via in silico methods has been shown to be a cost- and time-effective way of aiding chemists in synthesizing materials with desired properties. Refractive index (n) is one of the most important defining characteristics of an optical material. Presented in this work is a quantitative structure-property relationship (QSPR) model that was developed to predict the refractive index for a diverse set of polymers. A number of models were created, where a four-variable model showed the best predictive performance with R2 = 0.904 and Q2LOO = 0.897. The robustness and predictability of the best model was validated using the leave-one-out technique, external set and y-scrambling methods. The predictive ability of the model was confirmed with the external set, showing the R2ext = 0.880. For the refractive index, the ionization potential, polarizability, 2D and 3D geometrical descriptors were the most influential properties. The developed model was transparent and mechanistically explainable and can be used in the prediction of the refractive index for new and untested polymers.
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  • 文章类型: Journal Article
    OBJECTIVE: Sulfonamides (sulfa drugs) are compounds with a wide range of biological activities and they are the basis of several groups of drugs. Quantitative Structure-Property Relationship (QSPR) models are derived to predict the logarithm of water/ 1-octanol partition coefficients (logP) of sulfa drugs.
    METHODS: A data set of 43 sulfa drugs was randomly divided into 3 groups: training, test and validation sets consisting of 70%, 15% and 15% of data point, respectively. A large number of molecular descriptors were calculated with Dragon software. The Genetic Algorithm - Multiple Linear Regressions (GA-MLR) and genetic algorithm -artificial neural network (GAANN) were employed to design the QSPR models. The possible molecular geometries of sulfa drugs were optimized at B3LYP/6-31G* level with Gaussian 98 software. The molecular descriptors derived from the Dragon software were used to build a predictive model for prediction logP of mentioned compounds. The Genetic Algorithm (GA) method was applied to select the most relevant molecular descriptors.
    RESULTS: The R2 and MSE values of the MLR model were calculated to be 0.312 and 5.074 respectively. R2 coefficients were 0.9869, 0.9944 and 0.9601for the training, test and validation sets of the ANN model, respectively.
    CONCLUSIONS: Comparison of the results revealed that the application the GA-ANN method gave better results than GA-MLR method.
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  • 文章类型: Journal Article
    BACKGROUND: In this study, we used a hierarchical approach to develop quantitative structure-activity relationship (QSAR) models for modeling physico-chemical properties of quinolone derivatives.
    OBJECTIVE: The relationship between some of the molecular descriptors with physic-chemical properties such as refractive index (n), polarizability (α) and HOMO-LUMO energy gap (ΔEH-L) was represented.
    METHODS: Quantum mechanical calculations using abinitio method at the #HF/6- 31++G** level were carried out to obtain the optimized geometry and then, the comprehensive set of molecular descriptors was computed by using the Dragon software. Genetic algorithm using multiple linear regression (GA-MLR) with backward method by SPSS software were utilized to construct QSAR models.
    RESULTS: The analytical powers of the established theoretical models were discussed using leaveone- out (LOO) cross-validation technique. A multi-parametric equation containing maximum three descriptors with suitable statistical qualities was obtained for predicting the studied properties.
    CONCLUSIONS: The QSPR analysis for the prediction of the refractive index, the polarizability and the HOMO-LUMO energy gap of 40 quinolone derivatives using GA-MLR method was performed. The achieved results showed that the best model for predicting the refractive index, the polarizability and the HOMO-LUMO energy gap contains maximum three descriptors. MLR analysis, using genetic algorithms as suitable descriptors selection method showed that the three selected descriptors play a vital role in the prediction of physicochemical properties of quinolone derivatives. It can be noted that the best descriptors in the final obtained models can be used to design and screen new drugs.
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  • 文章类型: Journal Article
    The partition coefficient is essential for the analysis of organic chemicals using solid-phase microextraction (SPME) techniques. In this study, a quantitative structure-property relationship (QSPR) model was developed with chemical descriptors for the prediction of the polyacrylate (PA)-water partition coefficient (KPA-w). The major variables influencing KPA-w in the QSPR model were CrippenlogP (crippen octanal-water partition coefficient), RNCG (relative negative charge-most negative charge/total negative charge), VE2_Dzv (average coefficient sum of the last eigenvector from the Barysz matrix/weighted by van der Waals volume), and ATSC4v (centred Broto-Moreau autocorrelation-lag 4/weighted by van der Waals volume). The relative determination coefficient (R2) and cross-validation coefficient (Q2) were 0.898 and 0.858, respectively, which implied that the model had excellent robustness. Mechanistic interpretation suggested that the factors affecting the partitioning process between PA and water are the hydrophobicity, relative negative charge, and van der Waals volume of a chemical. The results of this study provide a good tool for predicting the log KPA-w values of diverse hydrophobic organic compounds (HOCs) within the applicability domain to reduce experimental costs and the time required for innovation.
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  • 文章类型: Journal Article
    The acidity of Lewis-Brønsted superacids can be derived from the theoretical calculations as the Gibbs free energy of the deprotonation reaction (ΔGacid ), which describes the tendency of a studied compound to donate a proton. This paper presents the first Quantitative Structure - Property Relationship (QSPR) model that correlates the ΔGacid of superacid (HF/MeX3 formula (X=F, Cl, Br)) with their structure. Developed model is well fitted, roubustness, has good predictive abilities, fulfills all OECD recommendation for good model. Obtained results provide the insight into the relation of structural features of superacids, which are responsible for their acid strength - the structures characterized by strong F-Me dative bond (with relatively large vibrational frequency), small positive partial atomic charge on Me central atom, possibly large polarity exhibit large acid strength. Such assumption can be used in the future as valuable information in the process of the designing new, stronger, more effective superacids.
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  • 文章类型: Journal Article
    人工神经网络(ANN)是基于人工智能和机器学习开发精确预测模型的最广泛使用的方法之一。在本研究中,开发可靠的人工神经网络模型的重要实践方面,例如适当分配神经元数量,隐藏层的数量,传递函数,训练算法,讨论了网络的数据集划分和初始化。作为一个案例研究,使用ANN的740个有机化合物的数据集的闪点的可预测性通过484220ANN的总数进行了研究,以允许覆盖影响ANN性能的各种参数。在所有研究的参数中,发现神经元或层的数量是开发具有低过拟合风险的可靠ANN的最重要参数。为了评估适当数量的神经元和层,建议将训练样本与ANN常数之比等于或大于10的值作为经验法则。更多,提出了一种用于评估ANN的真实性能并确定ANN模型可靠性的策略,该策略适用于通过监督学习开发的其他模型。基于介绍的考虑,提出了一种预测纯有机化合物闪点的人工神经网络模型。根据结果,与其他可用模型相比,新模型产生的误差最低。
    Artificial neural network (ANN) is one of the most widely used methods to develop accurate predictive models based on artificial intelligence and machine learning. In the present study, the important practical aspects of developing a reliable ANN model e.g. appropriate assignment of the number of neurons, number of hidden layers, transfer function, training algorithm, dataset division and initialization of the network are discussed. As a case study, predictability of the flash point for a dataset of 740 organic compounds using ANNs was investigated via a total number of 484220ANNs to allow covering a wide range of parameters affecting the performance of an ANN. Among all studied parameters, the number of neurons or layers was found to be the most important parameters to develop a reliable ANN with low overfitting risk. To evaluate appropriate number of neurons and layers, a value of equal or greater than 10 for the ratio of the training samples to the ANN constants was suggested as a rule of thumb. More ever, a strategy for evaluation of the authentic performance of ANNs and deciding about the reliability of an ANN model was proposed which is applicable to other models developed by supervised learning. Based on the introduced considerations, an ANN model was proposed for predicting the flash point of pure organic compounds. According to the results, the new model was found to produce the lowest error compared to other available models.
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