Zhan Si, Deguang Liu, Wan Nie, Jingjing Hu, Chen Wang, Tingting Jiang, Haizhu Yu, Yao Fu
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引用次数: 0
摘要
快速准确地预测分子的基本物理化学参数将大大加快以目标为导向的新型反应和材料的设计,但长期以来一直面临挑战。在此,我们开发了一种基于化学语言模型的深度学习方法--TransChem,用于预测有机分子的氧化还原电位。通过嵌入有效的分子特征描述(结合空间和电子特征)、非线性分子信息传递方法(Mol-Attention)和扰动学习方法,TransChem 在预测由超过 100,000 个数据组成的有机自由基的氧化还原电位方面表现出了很高的准确性(R2 > 0.97, MAE <0.09 V),并可推广到较小的 2,1,3-苯并噻二唑数据集(3000 个数据点)和电子亲和力数据集(660 个数据),其 MAE 分别为 0.07 V 和 0.18 eV。在此背景下,TransChem 采用高通量和主动学习策略预测了一个自主开发的数据集,即全空间二取代苯酚数据集(OPP 数据集,总集数:74529)的氧化电位(OP)。对 OP 进行快速可靠的预测有望加快筛选高选择性苯酚衍生物交叉偶联的合理试剂。这项研究是用化学知识指导语言建模的一次重要尝试,TransChem 在氧化还原电位预测基准数据集上展示了最先进的(SOTA)预测性能,从而更好地理解了分子设计和构象关系。
Data-Based Prediction of Redox Potentials via Introducing Chemical Features into the Transformer Architecture
Rapid and accurate prediction of basic physicochemical parameters of molecules will greatly accelerate the target-orientated design of novel reactions and materials but has been long challenging. Herein, a chemical language model-based deep learning method, TransChem, has been developed for the prediction of redox potentials of organic molecules. Embedding an effective molecular characterization (combining spatial and electronic features), a nonlinear molecular messaging approach (Mol-Attention), and a perturbation learning method, TransChem, shows high accuracy in predicting the redox potential of organic radicals comprising over 100,000 data (R2 > 0.97, MAE <0.09 V) and is generalized to the smaller 2,1,3-benzothiadiazole data set (<3000 data points) and electron affinity data set (660 data) with low MAE of 0.07 V and 0.18 eV, respectively. In this context, a self-developed data set, i.e., the oxidation potential (OP) of a full-space disubstituted phenol data set (OPP-data set, total set: 74,529), has been predicted by TransChem with a high-throughput, and active learning strategy. The rapid and reliable prediction of OP could hopefully accelerate the screening of plausible reagents in highly selective cross-coupling of phenol derivatives. This study presents an important attempt to guide language modeling with chemical knowledge, while TransChem demonstrates state-of-the-art (SOTA) predictive performance on redox potential prediction benchmark data sets for its better understanding of molecular design and conformational relationships.
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.
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