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automatic retrosynthetic pathway planning_v1_linkj_LL_v2-LL linkj.pdf (1.29 MB)

Automatic Retrosynthetic Pathway Planning Using Template-free Models

preprint
submitted on 22.05.2019, 15:28 and posted on 23.05.2019, 15:37 by Kangjie Lin, Jianfeng Pei, Luhua Lai, Youjun Xu,

We present an attention-based Transformer model for automatic retrosynthesis route planning. Our approach starts from reactants prediction of single-step organic reactions for given products, followed by Monte Carlo tree search-based automatic retrosynthetic pathway prediction. Trained on two datasets from the United States patent literature, our models achieved a top-1 prediction accuracy of over 54.6% and 63.0% with more than 95% and 99.6% validity rate of SMILES, respectively, which is the best up to now to our knowledge. We also demonstrate the application potential of our model by successfully performing multi-step retrosynthetic route planning for four case products, i.e., antiseizure drug Rufinamide, a novel allosteric activator, an inhibitor of human acute-myeloid-leukemia cells and a complex intermediate of drug candidate. Further, by using heuristics Monte Carlo tree search, we achieved automatic retrosynthetic pathway searching and successfully reproduced published synthesis pathways. In summary, our model has achieved the state-of-the-art performance on single-step retrosynthetic prediction and provides a novel strategy for automatic retrosynthetic pathway planning.



History

Email Address of Submitting Author

yjxu@pku.edu.cn

Institution

Peking University

Country

China

ORCID For Submitting Author

0000-0002-8022-6194

Declaration of Conflict of Interest

no conflict of interest

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