1. Zhaokui Cai^#*, Hailian Zhao^#, Yuanchao Xue*. Protocol for profiling virus-to-host RNA-RNA interactions in infected cells by RIC-seq. STAR Protocols, 2024, 5(3): 103149

2. Hailian Zhao^#, Zhaokui Cai^#, Jian Rao^#, Di Wu^#, Lei Ji, Rong Ye, Di Wang, Juan Chen, Changchang Cao, Naijing Hu, Ting Shu, Ping Zhu, Jianwei Wang, Xi Zhou, Yuanchao Xue*. SARS-CoV-2 RNA stabilizes host mRNAs to elicit immunopathogenesis. Molecular Cell, 2024, 84(3): 490-505.

3. Liang Liang^#, Changchang Cao^#, Lei Ji^#, Zhaokui Cai^#, Di Wang, Rong Ye, Juan Chen, Xiaohua Yu, Jie Zhou, Zhibo Bai, Ruoyan Wang, Xianguang Yang, Ping Zhu, Yuanchao Xue*. Complementary Alu sequences mediate enhancer-promoter selectivity. Nature, 2023, 619(7971):868-875.

4. Changchang Cao^#, Zhaokui Cai^#, Xia Xiao^#, Jian Rao, Juan Chen, Naijing Hu, Minnan Yang, Xiaorui Xing, Yongle Wang, Manman Li, Bing Zhou, Xiangxi Wang, Jianwei Wang*, Yuanchao Xue*. The architecture of the SARS-CoV-2 RNA genome inside virion. Nature Communications, 2021, 12(1): 3917.

5. Changchang Cao^#, Zhaokui Cai^#, Rong Ye, Ruibao Su, Naijing Hu, Hailian Zhao, Yuanchao Xue*. Global in situ profiling of RNA-RNA spatial interactions with RIC-seq. Nature Protocols, 2021, 16(6): 2916-2946.

6. Zhaokui Cai^#, Changchang Cao^#, Lei Ji^#, Rong Ye, Di Wang, Cong Xia, Sui Wang, Zongchang Du, Naijing Hu, Xiaohua Yu, Juan Chen, Lei Wang, Xianguang Yang, Shunmin He, Yuanchao Xue*. RIC-seq for global in situ profiling of RNA-RNA spatial interactions. Nature, 2020, 582, 432-437.

7. Juan Chen^#, Zhaokui Cai^#, Meizhu Bai^#, Xiaohua Yu^#, Chao Zhang^#, Changchang Cao, Xihao Hu, Lei Wang, Ruibao Su, Di Wang, Lei Wang, Yingpeng Yao, Rong Ye, Baidong Hou, Yang Yu, Shuyang Yu, Jinsong Li, Yuanchao Xue*. The RNA-binding protein ROD1/PTBP3 cotranscriptionally defines AID-loading sites to mediate antibody class switch in mammalian genomes. Cell Research, 2018, 28(10): 981-995.

8. Youkun Bi^#, Xinlong Qiao^#, Zhaokui Cai, Hailian Zhao, Rong Ye, Qun Liu, Lin Gao, Yingqi Liu, Bo Liang, Yixuan Liu, Yaning Zhang, Zhiguang Yang, Yanyun Wu, Huiwen Wang, Wei Jia, Changqing Zeng, Ce Jia, Hongjin Wu*, Yuanchao Xue*, Guangju Ji*. Exosomal miR-302b rejuvenates aging mice by reversing the proliferative arrest of senescent cells. Cell Metabolism, 2025, 37(2): 527-541.

9. Siyuan Shen^#, Yanze Jian^#, Zhaokui Cai, Fudong Li, Mengqi Lv, Yongrui Liu, Jihui Wu, Chuanhai Fu*, Yunyu Shi*. Structural insights reveal the specific recognition of meiRNA by the Mei2 protein. Journal of Molecular Cell Biology, 2022, 14(5)

10. Di Wang, Rong Ye, Zhaokui Cai, Yuanchao Xue*. Emerging roles of RNA-RNA interactions in transcriptional regulation. Wiley Interdiscip Rev RNA, 2022 Sep;13(5):e1712.

11. Ruibao Su^#, Li-Hua Fan^#, Changchang Cao^#, Lei Wang, Zongchang Du, Zhaokui Cai, Ying-Chun Ouyang, Yue Wang, Qian Zhou, Ligang Wu, Nan Zhang, Xiaoxiao Zhu, Wen-Long Lei, Hailian Zhao, Yong Tian, Shunmin He, Catherine C L Wong*, Qing-Yuan Sun*, Yuanchao Xue*. Global profiling of RNA-binding protein target sites by LACE-seq. Nature Cell Biology, 2021, 23(6): 664-675.

12. Zonghong Li^#, Maoge Zhou^#, Zhaokui Cai, Hongyang Liu, Wen Zhong, Qiang Hao, Dongwan Cheng, Xihao Hu, Junjie Hou, Pingyong Xu, Yuanchao Xue, Yifa Zhou, Tao Xu*. RNA-binding protein DDX1 is responsible for fatty acid-mediated repression of insulin translation. Nucleic Acids Research, 2018; 46(22):12052-12066.

13. Chang Liu^#, Ying Xin^#, Le Xu^#, Zhaokui Cai, Yuanchao Xue, Yong Liu, Daoxin Xie, Yule Liu, Yijun Qi*. Arabidopsis ARGONAUTE 1 Binds Chromatin to Promote Gene Transcription in Response to Hormones and Stresses. Developmental Cell, 2018, 44, 348-361.e347.

（资料来源：蔡兆奎副研究员，2025-09-01）