In silico Prediction of Chemical Ames Mutagenicity

详细信息    查看全文

• 作者：Congying Xu ; Feixiong Cheng ; Lei Chen ; Zheng Du ; Weihua Li ; Guixia Liu ; Philip W. Lee ; Yun Tang
• 刊名：Journal of Chemical Information and Modeling
• 出版年：2012
• 出版时间：November 26, 2012
• 年：2012
• 卷：52
• 期：11
• 页码：2840-2847
• 全文大小：355K
• 年卷期：v.52,no.11(November 26, 2012)
• ISSN：1549-960X

文摘

Mutagenicity is one of the most important end points of toxicity. Due to high cost and laboriousness in experimental tests, it is necessary to develop robust in silico methods to predict chemical mutagenicity. In this paper, a comprehensive database containing 7617 diverse compounds, including 4252 mutagens and 3365 nonmutagens, was constructed. On the basis of this data set, high predictive models were then built using five machine learning methods, namely support vector machine (SVM), C4.5 decision tree (C4.5 DT), artificial neural network (ANN), k-nearest neighbors (kNN), and na茂ve Bayes (NB), along with five fingerprints, namely CDK fingerprint (FP), Estate fingerprint (Estate), MACCS keys (MACCS), PubChem fingerprint (PubChem), and Substructure fingerprint (SubFP). Performances were measured by cross validation and an external test set containing 831 diverse chemicals. Information gain and substructure analysis were used to interpret the models. The accuracies of fivefold cross validation were from 0.808 to 0.841 for top five models. The range of accuracy for the external validation set was from 0.904 to 0.980, which outperformed that of Toxtree. Three models (PubChem-kNN, MACCS-kNN, and PubChem-SVM) showed high and reliable predictive accuracy for the mutagens and nonmutagens and, hence, could be used in prediction of chemical Ames mutagenicity.