Author

Protenix Team

University of Amsterdam

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Bioinformatics· 1 Molecular Biology· 1

Signature Assays, Organisms & Methods

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Approach:deep learning· 2 Research Focus:benchmarking· 1 Approach:diffusion model· 1 Research Focus:protein design· 1 Assay:protein sequence· 1 Assay:protein structure· 1 Research Focus:protein structure prediction· 1 Research Focus:software / tool· 1

Frequent Co-Authors

Chengyue GongiD· 2 shared Hanyu ZhangiD· 2 shared Jiaqi GuaniD· 2 shared Lan WangiD· 2 shared Wenzhi MaiD· 2 shared Wenzhi XiaoiD· 2 shared Xinshi CheniD· 2 shared Yuxuan ZhangiD· 2 shared

Activity by Year

2025-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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2 shared papersBioinformatics

Chengyue GongORCID

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2 papers

Recent·Most cited

Protenix-v1: Toward High-Accuracy Open-Source Biomolecular Structure Prediction

Protenix Team, Yuxuan Zhang, Chengyue Gong, Hanyu Zhang, Wenzhi Ma, Zhenyu Liu, Xinshi Chen, Jiaqi Guan, Lan Wang, Yanping Yang, Wenzhi Xiao

Protenix-v1 is an open-source biomolecular structure prediction model that outperforms AlphaFold3 with the same training data cutoff, offering improved accuracy and new features for real-world applications.

bioRxiv · Feb 22, 2026 · PreprintBioinformatics

PXDesign: Fast, Modular, and Accurate De Novo Design of Protein Binders

Protenix Team, Milong Ren, Jinyuan Sun, Jiaqi Guan, Cong Liu, Chengyue Gong, Y.X. Wang, Lan Wang, Qixu Cai, Wenzhi Ma, Yuxuan Zhang, Zhenyu Liu, Hanyu Zhang, Xinshi Chen, Wenzhi Xiao

PXDesign achieves high hit rates for protein binder design by combining generative models and filtering strategies, validated experimentally and made publicly available.

bioRxiv · Aug 15, 2025 · PreprintMolecular Biology