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 (<i>R</i><sup>2</sup> > 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.

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Publication Details

Journal
Journal of Chemical Information and Modeling
Published
2024-11-08
DOI
https://doi.org/10.1021/acs.jcim.4c01299
Citations
5
Primary Topic
Computational Drug Discovery Methods
Type
article
Field-Weighted Citation Impact
1.81

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article

Data-Based Prediction of Redox Potentials via Introducing Chemical Features into the Transformer Architecture

Deguang Liu, Haizhu Yu, Zhan Si, Wan Nie et al.
5 citations
Journal of Chemical Information and Modeling
Computational Drug Discovery Methods
1.81
article

Data-Based Prediction of Redox Potentials via Introducing Chemical Features into the Transformer Architecture

Deguang Liu, Haizhu Yu, Zhan Si, Wan Nie, Yao Fu, Jingjing Hu, Tingting Jiang, Chen Wang
article en
5 citations

Abstract

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 (<i>R</i><sup>2</sup> > 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.

Journal of Chemical Information and ModelingVol. 64(22)
University of Science and Technology of China (CN), Anhui University (CN), Hefei University of Technology (CN), City University of Hong Kong (HK), CAS Key Laboratory of Urban Pollutant Conversion (CN)
National Natural Science Foundation of China, China Postdoctoral Science Foundation, Major Science and Technology Projects in Anhui Province
Openalex Percentile: Top 13%
Computational Drug Discovery Methods
1.81
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