Dr. Qiuyue Yuan is an Assistant Professor and Ph.D. supervisor at the Southern University of Science and Technology. She earned her Bachelor's degree in Mathematics and Applied Mathematics from Beijing Normal University in 2016 and her Ph.D. in Operational Research and Cybernetics from the Academy of Mathematics and Systems Science (AMSS), Chinese Academy of Sciences, in 2021. She then conducted postdoctoral research at the Center for Human Genetics, Clemson University, USA, focusing on constructing gene regulatory networks using single-cell multi-omics data. Her research integrates mathematical modeling, artificial intelligence, and biomedical multi-omics data to uncover the dynamic mechanisms of gene regulation and their applications in precision medicine. She has published several high-quality papers, including first-author or co-first author publications in international journals such as Nature Biotechnology, Genome Biology, and Nature Communications.
1. Developing explainable AI models to analyze single-cell multi-omics data and construct gene regulatory networks, advancing precision medicine and personalized therapies.
2. Revealing the molecular mechanisms of cell fate determination from a regulatory perspective.
3. Combining optimization algorithms and machine learning to address complex data analysis challenges in biomedicine.
Ph.D.: Operational Research and Cybernetics, Academy of Mathematics and Systems Science (AMSS), Chinese Academy of Sciences, September 2016 - June 2021
Bachelor's Degree: Mathematics and Applied Mathematics, Beijing Normal University, September 2012 - July 2016
· Postdoc: Center for Human Genetics, Clemson University, August 2021 - February 2025
· Assistant Professor: School of Medicine, Southern University of Science and Technology, January 2025 - May 2026 (Ph.D. Supervisor)
· Associate Professor: School of Medicine, Southern University of Science and Technology, May 2026 - Present (Ph.D. Supervisor)
· 2015: National Scholarship
· 2016: Outstanding Graduate of Beijing
· 2018: Third Prize in the First Global Operations Research Challenge
· 2020: Special Award of Dean's Scholarship, AMSS, Chinese Academy of Sciences
Reviewer for academic journals such as Nature Communications, Gigascience, and Frontiers in Genetics.
* represents co-first author
1.Yuan, Qiuyue, and Zhana Duren. "Inferring gene regulatory networks from single-cell multiome data using atlas-scale external data." Nature Biotechnology (2024): 1-11. https://www.nature.com/articles/s41587-024-02182-7
2.Yuan, Qiuyue, and Zhana Duren. "Integration of single-cell multi-omics data by regression analysis on unpaired observations." Genome Biology 23.1 (2022): 160. https://link.springer.com/article/10.1186/s13059-022-02726-7
3. Fei Li*, Qiuyue Yuan*, Wei Di, Xinyi Xia, Zhuang Liu, Ninghui Mao, Lin Li, Chunfeng Li, Juan He, Yunguang Li, Wangxin Guo, Xiaoyu Zhang, Yiqin Zhu, Rebiguli Aji, Shangqian Wang, Xinyuan Tong, Hongbin Ji, Ping Chi, Brett Carver, Yong Wang, Yu Chen, and Dong Gao. ERG orchestrates chromatin interactions to drive prostate cell fate reprogramming[J]. Journal of Clinical Investigation, 2020. https://www.jci.org/articles/view/137967
4. Zhu, Yanjing*, Shijie Tang*, Qiuyue Yuan*, Jing Fu*, Juan He*, Zhuang Liu, Xiaofang Zhao et al. "Integrated characterization of hepatobiliary tumor organoids provides a potential landscape of pharmacogenomic interactions." Cell Reports Medicine 5, no. 2 (2024). https://www.cell.com/cell-reports-medicine/pdf/S2666-3791(23)00604-3.pdf
5. Xiaohan Shi*, Yunguang Li*, Qiuyue Yuan*, Shijie Tang*, Shiwei Guo*, Yehan Zhang, Juan He, Xiaoyu Zhang, Ming Han, Zhuang Liu, Yiqin Zhu, Suizhi Gao, Huan Wang, Xiongfei Xu, Kailian Zheng, Wei Jing, Luonan Chen, Yong Wang, Gang Jin & Dong Gao. "Integrated profiling of human pancreatic cancer organoids reveals chromatin accessibility features associated with drug sensitivity." Nature Communications 13.1 (2022): 1-16. https://www.nature.com/articles/s41467-022-29857-6
6. Qiuyue Yuan, and Yong Wang. 3Scover: Identifying Safeguard TF from Cell Type-TF Specificity Network by an Extended Minimum Set Cover Model[J]. iScience, 2020, 23(6): 101227. https://www.sciencedirect.com/science/article/pii/S2589004220304120
7. Meng Zou, Zhana Duren, Qiuyue Yuan, Henry Li, Andrew Paul Hutchins, Wing Hung Wong, and Yong Wang. "MIMIC: an optimization method to identify cell type-specific marker panel for cell sorting." Briefings in bioinformatics 22.6 (2021): bbab235. https://academic.oup.com/bib/article/22/6/bbab235/6309927?login=true
8. Guofeng Zhou, Shaoyan Sun, Qiuyue Yuan, Run Zhang, Ping Jiang, Guangyu Li, Yong Wang, and Xiao Li. "Multiple-Tissue and Multilevel Analysis on Differentially Expressed Genes and Differentially Correlated Gene Pairs for HFpEF." Frontiers in genetics 12 (2021). https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8296822/
9. Jingxue Xin*, Hui Zhang*, Yaoxi He*, Zhana Duren*, Caijuan Bai*, Lang Chen, Xin Luo, Dong-Sheng Yan, Chaoyu Zhang, Xiang Zhu, Qiuyue Yuan, Zhanying Feng, Chaoyiing Cui, Xuebin Qi, Ouzhuluobu NA, Wing Wong, Yong Wang, and Bing Su. Chromatin accessibility landscape and regulatory network of high-altitude hypoxia adaptation[J]. Nature communications, 2020, 11(1): 1-20. https://www.nature.com/articles/s41467-020-18638-8
