arXivDaily arXiv每日学术速递 周一至周五更新
arXiv 2202.08205cs.LGcs.AI
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SemiRetro:半模板框架提升深度逆合成预测

SemiRetro: Semi-template framework boosts deep retrosynthesis prediction

Westlake University(西湖大学);Zhejiang University(浙江大学)

Zhangyang Gao, Cheng Tan, Lirong Wu, Stan Z. Li

摘要:

最近,基于模板(TB)和无模板(TF)的分子图学习方法已经显示出有希望的结果逆合成。TB方法使用预编码的反应模板更准确,TF方法通过将逆合成分解为子问题,即,中心识别和合成子完成。为了结合TB和TF的优点,我们建议将一个完整的模板分解为几个半模板,并将它们嵌入到两步TF框架中。由于许多半模板是重复的,因此可以减少模板冗余,同时仍然保留必要的化学知识以促进合成子完成。我们称我们的方法为SemiRetro,引入了一个新的GNN层(DRGAT)来增强中心识别,并提出了一个新的自校正模块来改进半模板分类。实验结果表明,SemiRetro显着优于现有的TB和TF方法。在可扩展性方面,SemiRetro使用150个半模板覆盖98.9%的数据,而之前基于模板的GLN需要11,647个模板才能覆盖93.3%的数据。在top-1准确度中,SemiRetro超过无模板G2 G 4.8\%(类别已知)和6.0\%(类别未知)。此外,SemiRetro具有比现有方法更好的训练效率。

英文摘要:

Recently, template-based (TB) and template-free (TF) molecule graph learning methods have shown promising results to retrosynthesis. TB methods are more accurate using pre-encoded reaction templates, and TF methods are more scalable by decomposing retrosynthesis into subproblems, i.e., center identification and synthon completion. To combine both advantages of TB and TF, we suggest breaking a full-template into several semi-templates and embedding them into the two-step TF framework. Since many semi-templates are reduplicative, the template redundancy can be reduced while the essential chemical knowledge is still preserved to facilitate synthon completion. We call our method SemiRetro, introduce a new GNN layer (DRGAT) to enhance center identification, and propose a novel self-correcting module to improve semi-template classification. Experimental results show that SemiRetro significantly outperforms both existing TB and TF methods. In scalability, SemiRetro covers 98.9\% data using 150 semi-templates, while previous template-based GLN requires 11,647 templates to cover 93.3\% data. In top-1 accuracy, SemiRetro exceeds template-free G2G 4.8\% (class known) and 6.0\% (class unknown). Besides, SemiRetro has better training efficiency than existing methods.

机构、总结、中文摘要均由AI分析而来,可能存在错误,请以论文正文为准。

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