1997 - 2001 B.S. in Electronic Engineering, Nanjin University of Science and Technology

2001 - 2004 Software Engineer, Beijing NEC IC Design Co. Ltd

2004 - 2009 Ph.D. in Bioinformatics, Institute of Biophysics, Chinese Academy of Sciences

Thesis: Function Research on Non-coding RNAs: From Transcriptome to Interaction Network

Advisor: Chen Runsheng

2009 - 2017 Associate Investigator, and then Investigator, Key Laboratory of Zoological Systematics and Evolution, Chinese Academy of Sciences

2010 - 2011 Postdoctoral Fellow in Department of Biostatistics and Computational Biology, Harvard Medical School/Dana-Farber Cancer Institute and School of Public Health, Boston, MA

2016.4 - 2016.7 Visiting scholar, Cellular & Molecular Medicine, University of California San Diego: La Jolla, CA, US

2017 - present Principal Investigator, Institute of Biophysics, Chinese Academy of Sciences

Director, Center for Big Data Research in Health

Professor, University of Chinese Academy of Sciences

1. Based on large-scale population cohort genome-wide data to construct of a big data multi-omics integration analysis platform.

2. Based on single-cell multi-omics to study the occurrence, development and metastasis of tumors.

3. Integration and association analysis of genomics data and clinical information, focused on variation in non-coding and regulatory regions.

1. Shuai Liu^#, Huaxia Luo^#, Peng Zhang, Yanyan Li, Di Hao, Sijia Zhang, Tingrui Song, Tao Xu*, Shunmin He*. (2024). Adaptive Selection of Cis-regulatory Elements in the Han Chinese. Mol. Biol. Evol.

DOI: https://doi.org/10.1093/molbev/msae034

2. Huaxia Luo^#, Peng Zhang^#, Wanyu Zhang, Yu Zheng, Di Hao, Yirong Shi, Yiwei Niu, Tingrui Song, Yanyan Li, Shilei Zhao, Hua Chen*, Tao Xu*, Shunmin He*. (2023). Recent positive selection signatures reveal phenotypic evolution in the Han Chinese population. Science Bulletin.

DOI: https://doi.org/10.1016/j.scib.2023.08.027

3. Honghong Zhou^#, Xinpei Hao^#, Peng Zhang, Shunmin He*. (2023). Noncoding RNA mutations in cancer. Wiley Interdisciplinary Reviews: RNA.

DOI: https://doi.org/10.1002/wrna.1812

4. Yirong Shi^#, Yiwei Niu^#, Peng Zhang, Huaxia Luo, Shuai Liu, Sijia Zhang, Jiajia Wang, Yanyan Li, Xinyue Liu, Tingrui Song, Tao Xu*, Shunmin He*. (2023). Characterization of genome-wide STR variation in 6,487 human genomes. Nature Communication.

DOI: https://doi.org/10.1038/s41467-023-37690-8

5. Yu Zheng^#, Huaxia Luo^#, Xueyi Teng^#, Xinpei Hao, Xiaoyu Yan, Yiheng Tang, Wanyu Zhang, Yuanxin Wang, Peng Zhang, Yanyan Li, Yi Zhao, Runsheng Chen*, Shunmin He*. (2023). NPInter v5.0: ncRNA interaction database in a new era. Nucleic Acids Res.

DOI: https://doi.org/10.1093/nar/gkac1002

6. Yiwei Niu^#, Xueyi Teng^#, Honghong Zhou^#, Yirong Shi, Yanyan Li, Yiheng Tang, Peng Zhang, Huaxia Luo, Quan Kang, Tao Xu*, Shunmin He*. (2022). Characterizing mobile element insertions in 5675 genomes. Nucleic Acids Res.

DOI: https://doi.org/10.1093/nar/gkac128

7. Peng Zhang^#, Huaxia Luo^#, Yanyan Li^#, You Wang^#, Jiajia Wang^#, Yu Zheng^#, Yiwei Niu, Yirong Shi, Honghong Zhou, Tingrui Song, Quan Kang, Han100K Initiative; Tao Xu*, Shunmin He*.(2021). NyuWa Genome resource: A deep whole-genome sequencing-based variation profile and reference panel for the Chinese population. Cell Rep 37, 110017.

DOI: https://doi.org/10.1016/j.celrep.2021.110017

8. Jiajia Wang^#, Yirong Shi^#, Honghong Zhou^#, Peng Zhang, Tingrui Song, Zhiye Ying, Haopeng Yu, Yanyan Li, Yi Zhao , Xiaoxi Zeng*, Shunmin He*, Runsheng Chen*.(2021). piRBase: integrating piRNA annotation in all aspects. Nucleic Acids Res.

DOI: https://doi.org/10.1093/nar/gkab1012

9.  Yanyan Li^#, Honghong Zhou^#, Xiaomin Chen^#, Yu Zheng, Quan Kang, Di Hao, Lili Zhang, Tingrui Song, Huaxia Luo, Yajing Hao, Runsheng Chen*, Peng Zhang*, Shunmin He*.(2021). SmProt: A Reliable Repository with Comprehensive Annotation of Small Proteins Identified from Ribosome Profiling. Genomics Proteomics Bioinformatics.

DOI: https://doi.org/10.1016/j.gpb.2021.09.002

10.  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*.(2021). Global profiling of RNA-binding  protein target sites by LACE-seq. Nat Cell Biol 23, 664-675.

DOI: https://doi.org/10.1038/s41556-021-00696-9

11.  CNCB-NGDC Members and Partners. (2021). Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2022. Nucleic Acids Res.

DOI: https://doi.org/10.1093/nar/gkab951

12.  Yajing Hao^#, Dongpeng Wang^#, Shuheng Wu, Xiao Li, Changwei Shao, Peng Zhang, Jia-Yu Chen, Do-Hwan Lim, Xiang-Dong Fu*, Runsheng Chen*, Shunmin He*. (2020). Active retrotransposons help maintain pericentromeric heterochromatin required for faithful cell division. Genome Research.

DOI: https://doi.org/10.1101/gr.256131.119

13.  Lianhe Zhao^#, Jiajia Wang^#, Yanyan Li^#,, Tingrui Song, Yang Wu, Shuangsang Fang, Dechao Bu, Hui Li, Liang Sun, Dong Pei, Yu Zheng, Jianqin Huang, Mingqing Xu, Runsheng Chen*, Yi Zhao*, Shunmin He*. (2020). NONCODEV6: an updated database dedicated to long non-coding RNA annotation in both animals and plants. Nucleic Acids Res.

DOI: https://doi.org/10.1093/nar/gkaa1046

14.  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*. (2020). RIC-seq for global in situ profiling of RNA-RNA spatial interactions. Nature.

DOI: https://doi.org/10.1038/s41586-020-2249-1

15.  Xueye Teng^#, Xiaomin Chen^#, Hua Xue^#, Yiheng Tang, Peng Zhang, Quan Kang, Yajing Hao, Runsheng Chen*, Yi Zhao*, Shunmin He*. (2020). NPInter v4.0: An integrated database of ncRNA interactions. Nucleic Acids Res.

DOI: https://doi.org/10.1093/nar/gkz969

16.  Shunmin He^#, Guoqiang Zhang^#, Jiajia Wang^#, Yaji Gao^#, Ruidi sun, Zhijie Cao, Zhenping Chen, Xiudeng Zheng, Jiao Yuan, Yuewan Luo, Xiaona Wang, Wenxin Zhang, Peng Zhang, Yi Zhao, Chuan He, Yi Tao*, Qinmiao Sun*, Dahua Chen*. (2019). 6mA-DNA-binding factor Jumu controls maternal-to-zygotic transition upstream of Zelda. Nature Communication. 10(1). 2219.

DOI: https://doi.org/10.1038/s41467-019-10202-3

17. The RNAcentral Consortium. (2019). RNAcentral: a hub of information for non-coding RNA sequences. Nucleic Acids Res.

DOI: https://doi.org/10.1093/nar/gky1034

18.  Jiajia Wang^#, Peng Zhang^#, Yiping Lu^#, Yanyan Li, Yu Zheng, Yunchao Kan, Runsheng Chen*, Shunmin He*. (2019). piRBase: a comprehensive database of piRNA sequences. Nucleic Acids Res.

DOI: https://doi.org/10.1093/nar/gky1043

19.  Liang Chen^#, Jia-Yu Chen^#, Yi-Jou Huang^#, Ying Gu, Jinsong Qiu, Hao Qian, Changwei Shao, Xuan Zhang, Jing Hu, Hairi Li, Shunmin He, Yu Zhou, Omar Abdel-Wahab, Dong-Er Zhang*, Xiang-Dong Fu*. (2018). The Augmented R-Loop Is a Unifying Mechanism for Myelodysplastic Syndromes Induced by High-Risk Splicing Factor Mutations. Molecular Cell. 69(3), 412-425

DOI: https://doi.org/10.1016/j.molcel.2017.12.029

(From Shunmin He, December 22, 2025)