Author

Ziyi You

University of Washington

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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Biochemistry· 1 Bioinformatics· 1

Signature Assays, Organisms & Methods

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Approach:deep learning· 1 Assay:DNA methylation· 1 Research Focus:drug response / drug discovery· 1 Approach:experimental assay· 1 Assay:protein structure· 1 Research Focus:protein structure prediction· 1 Assay:proteomics· 1 Approach:statistical model· 1

Frequent Co-Authors

Jiaqi WangiD· 2 shared Odin ZhangiD· 2 shared David A. BakeriD· 1 shared Frank DiMaioiD· 1 shared Gang Du· 1 shared Heqin ZhuiD· 1 shared Huang Su· 1 shared Jianmin WangiD· 1 shared

Activity by Year

2026-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 33 mutual co-author links

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2 shared papersBiochemistry

Jiaqi WangORCID

Mutual co-authors in cluster

Author profile →

2 papers

Recent·Most cited

RFOptimization: Guiding Design Optimization with All-Atom Structure Prediction

Odin Zhang, Jiaqi Wang, Tuscan Rock Thompson, Ziyi You, Zihao Song, Frank DiMaio, David A. Baker

RFOptimization improves all-atom biomolecular binder design by combining gradient-guided sequence optimization with orthogonal predictors to enhance in silico success rates.

bioRxiv · Sep 9, 2026 · PreprintBiochemistry

NACraft: Programmatic nucleic-acid aptamer design via all-atom structure-model feedback

Heqin Zhu, Jiaqi Wang, Weibo Zhao, Yuzhi Richie Xu, Huang Su, Jianmin Wang, Qianhan Wang, Yuntao Yu, Ziyi You, Gang Du, P Y Heng, Liqin Zhang, Odin Zhang

NACraft generates high-confidence nucleic-acid aptamers for diverse protein targets using a programmatic framework with structure-model feedback, outperforming existing methods in several evaluations.

bioRxiv · Aug 21, 2026 · PreprintBioinformatics