Classification of bioaccumulative and non-bioaccumulative chemicals using statistical learning approaches

The present work aimed at developing in silico models allowing for a reliable prediction of bioaccumulative compounds and non-bioaccumulative compounds based on the definition of Bioconcentration Factor (BCF) using a diverse data set of 238 organic molecules. The partial least squares analysis (PLS), C4.5, support vector machine (SVM), and random forest (RF) algorithms were applied, and their performance classifying these compounds in terms of their quantitative structure-activity relationships (QSAR) was evaluated and verified with 5-fold cross-validation and an independent evaluation data set. The obtained results show that the overall prediction accuracies (Q) of the optimal PLS, C4.5, SVM and RF models are 84.5-87.7% for the internal cross-validation, with prediction accuracy (CO) of 86.3-91.1% in the external test sets, and C4.5 is slightly better than the three other methods which presents a Q of 87.7%, and a CO of 91.1% for the test sets. All these results prove the reliabilities of the in silico models, which should be valuable for the environmental risk assessment of the substances.     

叶绿素荧光PCA-SVM分析的黄瓜病虫害诊断研究

为了对植物病虫害进行快速准确检测,采用荧光光谱技术并结合支持向量机分析方法建立了黄瓜病虫害诊断模型。通过Savitzky-Golay平滑法(SG),SG平滑法+快速傅里叶变换(FFT)和SG平滑法+一阶导数变换(FDT)三种方法对原始光谱进行降噪处理,并利用主成分分析法(PCA)对降噪后的光谱进行降维,根据累积贡献率选取7个主成分进行分析。将样本数据随机分为训练集和预测集,利用四种核函数条件下的支持向量机算法建立了预测模型,并进行预测。以训练集交叉验证的分类准确率最大值为指标,对四种核函数模型进行参数优化,并对比其分类性能,结果表明,经SG+FDT+PCA预处理后,具有多项式核函数的支持向量机对黄瓜病虫害的鉴别准确率达到98.3%,具有很好的分类和鉴别效果。     

应用键轨道连接矩阵方法预测烷烃折光率.

应用键轨道连接矩阵方法提取结构参数PX1CC和PX1CH， 并用于建立预测烷烃折光率的QSPR模型．该模型不仅预测精度较高(其误差仅为0.0048)，而且模型中采用的参数表达了直接与分子的折光能力相关的结构信息(即烷烃分子中电子被极化的能力)．此参数提取简单，既具备拓扑指数简单、易算，物理意义明确．     

基于支持向量机、支持向量回归和分子对接的CYP450 1A2抑制剂的发现研究

支持向量机,支持向量回归和分子对接的计算方法已广泛应用于化合物的药理活性计算。为了提高计算的准确性和可靠性,拟以细胞色素P450酶1A2为研究载体,运用建立的联合SVM-SVR-Docking计算模型预测潜在的CYP1A2抑制剂。其中,建立的最优SVM定性模型训练集,内部测试集和外部测试集的准确率分别为99.432%,97.727%和91.667%。最优SVR定量模型训练集和测试集的R和MSE分别为0.763,0.013和0.753,0.056。实验表明两个模型具有较高的准确性和可靠性。通过对SVM和SVR模型结果的比较分析,发现连接性指数、分子构成描述符和官能团数目等分子描述符可能与CYP1A2抑制剂的辨识和活性预测密切相关。随后利用分子对接技术分析化合物与CYP1A2的结合构象及相互作用的稳定性。形成氢键相互作用的关键氨基酸包括THR124,ASP320;形成疏水相互作用的关键氨基酸包括ALA317和GLY316。所获得模型可用于天然产物化学成分中CYP1A2潜在抑制剂的活性计算及其介导的药物-药物相互作用预测提供理论指导,也为合理联合用药提供一定参考。共获得20个对CYP1A2具有潜在抑制活性的化合物。部分结果与文献结果相互印证,进一步说明了模型的准确性和联合计算策略的可靠性.