Molecular pretraining offers a route to learning transferable chemical representations from unlabelled data. However, existing approaches pretrained on isolated molecular structures struggle to generalize to reaction-specific tasks because their pretraining objectives provide limited information about chemical transfor...
Jian-Bo Qiao, Yu-Hang Liu, Jun-Ru Jin et al.· bioRxiv· 0 citations
Results indicate that incorporating molecular cost information into heuristic search can improve the practicality and economic efficiency of retrosynthetic planning.
Shuan Liu, Jing-Wen Wang, Shao-Ye Zhang et al.· European journal of medicina...· 0 citations
Experimental results show that ATSFormer consistently outperforms existing state-of-the-art methods while achieving substantial computational savings and structural analysis using AlphaFold3 supports the biological relevance of the motifs identified by ATSFormer.
Wen-Jia Gao, Jun-Lei Yu, Jun-Ru Jin et al.· Bioinformatics· 0 citations
Evaluations across three downstream tasks show that KAGT achieves strong performance relative to existing baselines in reaction classification, reaction condition prediction, and yield prediction, supporting KAGT as a transferable representation framework for AI-driven chemical synthesis.
Jian-Bo Qiao, Ke-Fei Li, Jun-Ru Jin et al.· Journal of Chemical Theory a...· 1 citation
Experimental results show that Hyp-Retro outperforms comparative methods in terms of search success rate and route yield, and it can adaptively adjust its planning strategy under different yield preferences, thereby generating high-quality retrosynthetic routes that better satisfy target-specific requirements.
A multimodal dual-contrastive learning framework for peptide property prediction is proposed, which improves both the structural encoder and the contrastive learning strategy to enhance the quality of joint sequence-structure representations.
Jiajie Cai, Shuwen Xiong, Yuntao Yang et al.· ACS Synthetic Biology· 0 citations
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