Author

Wenyu Zhu

Tsinghua UniversityORCID 0009-0002-9346-3153Unclaimed 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:drug response / drug discovery· 4 Approach:deep learning· 3 Research Focus:benchmarking· 2 Organism:human· 2 Assay:protein structure· 2 Assay:proteomics· 2 Approach:statistical model· 2 Approach:contrastive learning· 1

Frequent Co-Authors

Bowen GaoiD· 4 shared Yanyan LaniD· 4 shared Xin HongiD· 3 shared Yinjun JiaiD· 3 shared Haichuan Tan· 2 shared Kelin Wu· 2 shared Chengkun WuiD· 1 shared Chuangye YaniD· 1 shared

Activity by Year

2025-2026 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 39 mutual co-author links

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4 shared papersBioinformatics

Bowen GaoORCID

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Author profile →

4 papers

Recent·Most cited

GalaxyVS: Exploring 100-Billion Compounds in Seconds

Xin Hong, Peishun Li, Wenyu Zhu, Chengkun Wu, Hao Guo, Haichuan Tan, Qi Wu, Kelin Wu, Liangsheng Chen, Yinjun Jia, Bowen Gao, Xiaodong Jian, Zhiquan Lai, Youyou Lu, Xiangfei Meng, Yanyan Lan

GalaxyVS rapidly screens 100 billion compounds against protein structures, achieving high throughput and releasing a cross-species interaction database.

bioRxiv · Jun 3, 2026 · PreprintBioinformatics

Beyond Lipschitz: Ranking Binding Affinity in Hyperbolic Space

Kelin Wu, Xin Hong, Wenyu Zhu, Bowen Gao, Wei-Ying Ma, Yanyan Lan

This paper introduces AlphaRank, a deep learning model that ranks protein-ligand binding affinity using hyperbolic geometry to overcome limitations of Euclidean space models.

bioRxiv · Feb 3, 2026 · PreprintBioinformatics

Deep contrastive learning enables genome-wide virtual screening

Yinjun Jia, Bowen Gao, Jiaxin Tan, Jiqing Zheng, Xin Hong, Wenyu Zhu, Haichuan Tan, Yuan Xiao, Liping Tan, Hongyi Cai, Yanwen Huang, Zhiheng Deng, Xiangwei Wu, Yue Jin, Yafei Yuan, , Yanyan Lan

DrugCLIP, a contrastive dense-retrieval model for pockets and molecules, beats docking on DUD-E and LIT-PCBA and screened about 10,000 human AlphaFold2 proteins in 24 hours.

Science · Jan 8, 2026Peer-reviewedBioinformatics✦ In-depth digest

How Good is AlphaFold3 at Ranking Drug Binding Affinities?

Xin Hong, Bowen Gao, Yinjun Jia, Wenyu Zhu, Qixuan Chen, Xiaohe Tian, Zhenyi Zhong, Jianhui Wang, Yanyan Lan

This study evaluates AlphaFold3-derived models for drug binding affinity ranking, showing they outperform existing methods and require fewer resources.

bioRxiv · May 27, 2025 · PreprintBioinformatics