I am currently a fourth-year PhD candidate at Artificial Intelligencein Healthcare (AIH) group and Machine Intelligence and Social Computing (MISC) Lab of The Chinese University of Hong Kong, supervised by Prof. Yu Li and Prof. Irwin King. Before that, I received the Bachelor’s degree in Applied Mathematics from Harbin Institute of Technology in 2022.
My research interest includes computational challenges in biology and healthcare, especially that related to single-cell data.
🔥 News
- 2025.07: 🎉🔥 CRISP was accepted by nature computational science.
- 2025.03: 🚀 Awarded the RECOMB 2025 Conference Travel Fellowship.
- 2025.01: One paper accepted by RECOMB 2025.
- 2024.11: 🎉🎉 RhoFold+ & RNA-FM is published in Nature Methods.
- 2024.09: One survey paper published Briefings in Bioinformatics.
- 2024.09: One paper accepted by NeurIPS 2024.
- 2024.08: Visit MBZUAI as a research assocaite, supervised by Prof. Le Song and Prof. Eric Xing.
- 2024.06: 🎉 Pass the Ph.D. candidate qualification.
- 2024.03: scNovel is published Briefings in Bioinformatics.
📖 Educations
- 2022.08 - Present, Ph.D., Computer Science and Engineering, The Chinese University of Hong Kong.
- 2024.08 - 2025.07, Research Associate, Department of Machine Learning and Computer Science, Mohamed Bin Zayed University of Artificial Intelligence.
- 2018.09 - 2022.06, B.S., School of Science, Harbin Institute of Technology.
📝 Publications
†: equal contribution
cfDecon: Accurate and Interpretable methylation-based cell type deconvolution for cell-free DNA
Yixuan Wang, Jiayi Li, Jingqi Li, Shen Yang, Yuhan Huang, Xinyuan Liu, Yimin Fan, Irwin King, Yumei Li, Yu Li
Accurate RNA 3D Structure Prediction using A Language Model-based Deep Learning Approach
Tao Shen, Zhihang Hu, Siqi Sun, Di Liu, Felix Wong, Jiuming Wang, Jiayang Chen, Yixuan Wang, Liang Hong, Jin Xiao, Liangzhen Zheng, Tejas Krishnamoorthi, Irwin King, Sheng Wang, Peng Yin, James J. Collins and Yu Li
Chuanyang Zheng†, Yixuan Wang†, Yuqi Cheng, Xuesong Wang, Hongxin Wei, Irwin King, Yu Li
Yanshuo Chen†, Yixuan Wang†, Yuelong Chen, Yuqi Cheng, Yumeng Wei, Yunxiang Li, Jiuming Wang, Yingying Wei, Ting-Fung Chan, Yu Li
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ifDEEPre: Large Protein Language-based Deep Learning Enables Interpretable and Fast Predictions of Enzyme Commission Numbers
Qingxiong Tan†, Jin Xiao†, Jiayang Chen, Yixuan Wang, Zeliang Zhang, Tiancheng Zhao, Yu Li
Briefings in Bioinformatics 2024 -
Progress and Opportunities of Foundation Models in Bioinformatics
Qing Li, Zhihang Hu, Yixuan Wang, Lei Li, Yimin Fan, Irwin King, Le Song, Yu Li
Briefings in Bioinformatics 2024 -
Con-AAE: Contrastive Cycle Adversarial Autoencoders for Single-cell Multi-omics Alignment and Integration
Xuesong Wang, Zhihang Hu, Tingyang Yu, Yixuan Wang, Ruijie Wang, Yumeng Wei, Juan Shu, Jianzhu Ma, Yu Li
Briefings in Bioinformatics 2023 -
AcrNET: Predicting anti-CRISPR with Deep Learning
Yunxiang Li†, Yumeng Wei†, Sheng Xu, Qingxiong Tan, Licheng Zong, Jiuming Wang, Yixuan Wang, Jiayang Chen, Liang Hong, Yu Li
Briefings in Bioinformatics 2023 -
Interpretable RNA Foundation Model from Unannotated Data for Highly Accurate RNA Structure and Function Predictions
Jiayang Chen†, Zhihang Hu†, Siqi Sun†, Qingxiong Tan, Yixuan Wang, Qinze Yu, Licheng Zong, Liang Hong, Jin Xiao, Tao Shen, Irwin King, Yu Li
Nature Methods 2024, bioRxiv
🎖 Honors and Awards
- 2025.03: The RECOMB 2025 Conference Travel Fellowship.
- 2022.10: Most Ten of the Outstanding Undergraduate, for international influence (individual).
- 2020.10: National Scholarship at HIT.
- 2020.09: International Finalist Winner, Mathematical Contest in Modeling-MCM (leader).
💬 Invited Talks
- 2024.04, Discovering Novel Rare Cell Types from Single-Cell RNA Sequencing Using Deep Learning. | [introduction]
💻 Internships
- 2024.09 - Present, Research Intern, Genbio AI.
- 2023.04 - 2024.05, Research Intern, BioMap Intelligent Technology.
- 2021.06 - 2021.08, Data and Product Intern, Midea Cloud Technology.