Author

Ning Zhu

Macao Polytechnic UniversityPrimary ORCID profile (0000-0003-3636-1150 · 1 paper)Unclaimed ORCID profile · follow to get notified of new preprints

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Ning ZhuiD1 paper · Chinese University of Hong Kong

Biology Disciplines

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Bioinformatics· 4

Signature Assays, Organisms & Methods

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Approach:deep learning· 4 Assay:protein structure· 4 Research Focus:protein design· 2 Research Focus:protein structure prediction· 2 Approach:statistical model· 2 Research Focus:benchmarking· 1 Approach:diffusion model· 1

Frequent Co-Authors

Hongliang DuaniD· 4 shared Chengyun ZhangiD· 3 shared Jingjing GuoiD· 3 shared Cheng ZhuiD· 2 shared Chenhao ZhangiD· 2 shared Kang Lin· 2 shared Qingyi MaoiD· 2 shared An SuiD· 1 shared

Activity by Year

2025-2025 · peak 4/yr

Co-Author Collaboration Network

10 top collaborators · 33 mutual co-author links

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4 shared papersBioinformatics

Hongliang DuanORCID

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4 papers

Recent·Most cited

AlphaFold3 for Non-canonical Cyclic Peptide Modeling: Hierarchical Benchmarking Reveals Accuracy and Practical Guidelines

Chengyun Zhang, Wentong Wang, Ning Zhu, Zhigang Cao, Yaling Wu, Qingyi Mao, Cheng Zhu, Chenhao Zhang, Jingjing Guo, Hongliang Duan

This study evaluates AlphaFold3's accuracy in predicting non-canonical cyclic peptides and provides guidelines for its application.

Journal of Chemical Information and Modeling · Aug 29, 2025Peer-reviewedBioinformatics

Accurate structure prediction of cyclic peptides containing unnatural amino acids using HighFold3

Sen Cao, Cheng Zhu, Qingyi Mao, Jingjing Guo, Ning Zhu, Hongliang Duan

HighFold3 improves cyclic peptide structure prediction, especially for those with unnatural amino acids, outperforming existing models.

Briefings in Bioinformatics · Aug 29, 2025Peer-reviewedBioinformatics

Cycledesigner Leveraging RFdiffusion and HighFold to Design Cyclic Peptide Binders for Specific Targets

Chenhao Zhang, Zhenyu Xu, Kang Lin, Ning Zhu, Chengyun Zhang, Wen Xu, Jingjing Guo, An Su, Chengxi Li, Hongliang Duan

This study introduces cycledesigner, a method combining RFdiffusion, ProteinMPNN, and HighFold to design cyclic peptide binders for specific targets, followed by scoring functions for screening.

Journal of Chemical Information and Modeling · Jun 10, 2025Peer-reviewedBioinformatics

HighPlay：Cyclic Peptide Sequence Design Based on Reinforcement Learning and Protein Structure Prediction

Huitian Lin, Cheng Zhu, Tianfeng Shang, Ning Zhu, Kang Lin, Chengyun Zhang, Xiang Shao, Xudong Wang, Hongliang Duan

HighPlay uses reinforcement learning and protein structure prediction to design cyclic peptides with good binding affinity, validated through molecular dynamics simulation and experimental testing.

Journal of Medicinal Chemistry · May 23, 2025Peer-reviewedBioinformatics