Author

Siwei Ma

Peking UniversityORCID 0000-0002-2731-5403Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Research Focus:protein structure prediction· 2 Approach:deep learning· 1 Assay:protein sequence· 1 Assay:protein structure· 1 Approach:statistical model· 1

Frequent Co-Authors

Zhiwei NieiD· 2 shared Chang LiuiD· 1 shared Fan XuiD· 1 shared Jie CheniD· 1 shared Jie CheniD· 1 shared Jie FuiD· 1 shared Ruochong Zheng· 1 shared Wen Zhu GaoiD· 1 shared

Activity by Year

2024-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 27 mutual co-author links

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2 shared papersMolecular Biology

Zhiwei NieORCID

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2 papers

Recent·Most cited

BiHiTo: Biomolecular Hierarchy-inspired Tokenization

Ruochong Zheng, Yutian Liu, Yian Zhao, Zhiwei Nie, Xuehan Hou, Chang Liu, Siwei Ma, Youdong Mao, Jie Chen

BiHiTo introduces a tokenizer inspired by biomolecular hierarchies to improve structure reconstruction and dynamic conformation exploration, achieving better performance than existing methods.

Proceedings of the AAAI Conference on Artificial Intelligence · Mar 14, 2026Peer-reviewedMolecular Biology

Interpretable antibody-antigen interaction prediction by introducing route and priors guidance

Yutian Liu, Zhiwei Nie, Jie Chen, Xinhao Zheng, Jie Fu, Zhihong Liu, Xudong Liu, Fan Xu, Xiansong Huang, Wenbin Zhang, Siwei Ma, Wen Zhu Gao, Yonghong Tian

This paper introduces S3AI, an interpretable method for predicting antibody-antigen interactions by combining structural knowledge and chemical rules, outperforming existing models and identifying key CDR regions.

bioRxiv · Mar 9, 2024 · PreprintBioinformatics