Author

Ye Yuan

Chinese Academy of Sciences

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

Same name, identified by ORCID

Biology Disciplines

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Bioengineering· 1 Bioinformatics· 1 Genomics· 1

Signature Assays, Organisms & Methods

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Approach:deep learning· 2 Approach:statistical model· 2 Assay:bulk RNA-seq· 1 Research Focus:gene regulatory network inference· 1 Organism:human· 1 Organism:mouse· 1 Research Focus:phylogenetics / evolution· 1 Research Focus:protein design· 1

Frequent Co-Authors

Bixun Qiu· 1 shared Douglas Redford TocheriD· 1 shared Fangchun Wu· 1 shared Guipeng Li· 1 shared Gula Que· 1 shared Hong-Bin SheniD· 1 shared Hongyu MaiD· 1 shared Huarong Bai· 1 shared

Activity by Year

2024-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 14 mutual co-author links

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1 shared paperGenomics

Bixun Qiu

Mutual co-authors in cluster

Author profile →

3 papers

Recent·Most cited

Fast Multi-objective RNA Optimization with Autoregressive Reinforcement Learning

Jiaqi Huang, Ning Feng, Huarong Bai, Yi Qiu Fang, Xiaojian Liu, Shengfan Wang, Junchi Yan, Hong-Bin Shen, Zilong Qiu, Ye Yuan, Rongkuan Hu, Xiaoyong Pan

RNAJog optimizes RNA sequences for multiple objectives using autoregressive reinforcement learning, achieving faster performance and improved vaccine design outcomes.

bioRxiv · Aug 26, 2025 · PreprintBioinformatics

High-resolution chromosome-level genome provides molecular insights into adaptive evolution in crabs

Yin Zhang, Ye Yuan, Meng‐Qian Zhang, Xiaoyan Yu, Bixun Qiu, Fangchun Wu, Douglas Redford Tocher, Jiajia Zhang, Shaopan Ye, Wenxiao Cui, Jonathan Y.S. Leung, Mhd Ikhwanuddin, Waqas Waqas, Tariq Dildar, Hongyu Ma

The paper presents a high-quality chromosome-level crab genome, revealing gene family expansions, regulatory mechanisms, and evolutionary adaptations in metabolic and developmental pathways.

bioRxiv · Jun 24, 2024 · PreprintGenomics

An AI-designed adenine base editor

Ye Yuan, Yang Chen, Rui Liu, Gula Que, Yina Yuan, Guipeng Li

This paper introduces ABE10, the first AI-designed adenine base editor validated experimentally, showing improved efficiency and reduced off-target effects compared to existing ABEs.

bioRxiv · Apr 28, 2024 · PreprintBioengineering