¨ Name：ZHENG Meizhen

¨ Rank：Assistant Professor

¨ Email：zhengmz@sustech.edu.cn

¨ ORCID: 0000-0003-2934-4088

¨ Weg-page：http://faculty.sustech.edu.cn/zhengmz/

¨ Lab-page：https://www.zhengmzlab.com/

Self-introduction

Dr. Meizhen Zheng received her B.Sc. degree from Tongji Medical College, Huazhong University of Science and Technology in 2001, and her M.Sc. in Biochemistry and Molecular Biology from Jinan University in 2004. She earned her Ph.D. in Oncology from Sun Yat-Sen University Cancer Center in 2007. After graduation, Dr. Zheng conducted postdoctoral and associate research work at the Genome Institute of Singapore (GIS) and The Jackson Laboratory for Genomic Medicine (JGM) in the United States, where she participated in major international projects such as ENCODE and the 4D Nucleome. At the end of 2019, Dr. Zheng joined the School of Life Sciences at Southern University of Science and Technology (SUSTech), where she established the 3D Genomics Laboratory. She is a recipient of the National-Level Leading Talent Award in Shenzhen. Dr. Zheng has published multiple research articles as first or corresponding author in internationally renowned journals including Nature, Science Advances, The EMBO Journal, and Briefings in Bioinformatics. She has presided over several research projects funded by national, provincial, and municipal agencies, and holds four approved patents. Dr. Zheng serves as a reviewer for journals such as Genome Biology, Nucleic Acids Research, Journal of Genetics and Genomics, and Genomics, Proteomics & Bioinformatics. She is a member of the first committee of the Single Cell Technology Branch of the Guangdong Precision Medicine Application Association, a committee member of the 3D Genomics Branch of the Chinese Genetics Society, and an academic committee member of the International 3D Genomics Symposium.

Research Interests

Dr. Zheng’s laboratory focuses on the development and application of cutting-edge 3D genomics technologies at the single-cell and single-molecule levels, aiming to unravel the spatial and dynamic relationships between higher-order chromatin structure and gene transcriptional regulation.

◆Development and application of high-resolution 3D genomics technologies (such as RDD, Science Advances 2024; ChIA-Drop, Nature 2019).

◆ Development and application of single-cell multi-omics technologies (such as scAIR, Science Advances 2024).

◆ Construction of intelligent data analysis and visualization platforms (such as ScSmOP, MCIBox, BIB 2022,2023).

Professional Experience

◆ 2019 – Present Assistant Professor, Southern University of Science and Technology

◆ 2012 – 2019 Postdoctoral Fellow & Associate Research Scientist, The Jackson Laboratory for Genomic Medicine (USA)

◆ 2010 – 2012 Postdoctoral Fellow, Genome Institute of Singapore

◆ 2007 – 2009 Postdoctoral Fellow, Donghua University

Education

◆ 2007 obtained Ph.D. degree at Sun Yat-Sen University Cancer Center

◆ 2004 obtained Master degree at Jinan University

◆ 2001 graduated from Tongji Medical College, Huazhong University of Science and Technology

Publications

Corresponding Author:

1: Tian, Simon Zhongyuan#,*; Yang, Yang#; Ning, Duo#; Yu, Ting#; Gao, Tong; Deng, Yuqing; Fang, Ke; Xu, Yewen; Jing, Kai; Huang, Guangyu; Chen, Gengzhan; Yin, Pengfei; Li, Yiming; Zeng, Fuxing*; Tian, Ruilin*; Zheng, Meizhen*. Landscape of the Epstein-Barr virus-host chromatin interactome and gene regulation. The EMBO Journal, 2025, 1–44.

2: Tian, Simon Zhongyuan#,*; Yang, Yang#; Ning, Duo#; Fang, Ke#; Jing, Kai; Huang, Guangyu; Xu, Yewen; Yin, Pengfei; Huang, Haibo; Chen, Gengzhan; Deng, Yuqing; Zhang, Shaohong; Zhang, Zhimin; Chen, Zhenxia; Gao, Tong; Chen, Wei; Li, Guoliang; Tian, Ruilin; Ruan, Yijun*; Li, Yiming*; Zheng, Meizhen*. 3D chromatin structures associated with ncRNA roX2 for hyperactivation and coactivation across the entire X chromosome. Science Advances, 2024, 10(30): eado5716.

3: Yang, Yang; Chen, Gengzhan; Gao, Tong; Ning, Duo; Deng, Yuqing; Tian, Simon Zhongyuan*; Zheng, Meizhen*. Tn5-Labeled DNA-FISH: An Optimized Probe Preparation Method for Probing Genome Architecture. International Journal of Molecular Sciences, 2025, 26(5): 2224.

4: Ning, Duo; Deng, Yuqing; Gao, Tong; Yang, Yang; Chen, Gengzhan; Tian, Simon Zhongyuan*; Zheng, Meizhen*. TF-chRDP: a method for simultaneously capturing transcription factor binding chromatin-associated RNA, DNA and protein. Frontiers in Cell and Developmental Biology, 2025, 13: 1561540.

5: Jing, Kai; Xu, Yewen; Yang, Yang; Yin, Pengfei; Ning, Duo; Huang, Guangyu; Deng, Yuqing; Chen, Gengzhan; Li, Guoliang; Tian, Simon Zhongyuan*; Zheng, Meizhen*. ScSmOP: a universal computational pipeline for single-cell single-molecule multiomics data analysis. Briefings in Bioinformatics, 2023, 24(6): bbad343.

6: Tian, Simon Zhongyuan*; Li, Guoliang; Ning, Duo; Jing, Kai; Xu, Yewen; Yang, Yang; Fullwood, Melissa J; Yin, Pengfei; Huang, Guangyu; Plewczynski, Dariusz; Zhai, Jixian; Dai, Ziwei; Chen, Wei; Zheng, Meizhen*. MCIBox: a toolkit for single-molecule multi-way chromatin interaction visualization and micro-domains identification. Briefings in Bioinformatics, 2022, 23(6): bbac380.

7: Tian, Simon Zhongyuan*; Yin, Pengfei; Jing, Kai; Yang, Yang; Xu, Yewen; Huang, Guangyu; Ning, Duo; Fullwood, Melissa J*; Zheng, Meizhen*. MCI-frcnn: A deep learning method for topological micro-domain boundary detection. Frontiers in Cell and Developmental Biology, 2022, 10: 1050769.

First Author:

8: Zheng, Meizhen; Tian, Simon Zhongyuan; Capurso, Daniel; Kim, Minji; Maurya, Rahul; Lee, Byoungkoo; Piecuch, Emaly; Gong, Liang; Zhu, Jacqueline Jufen; Li, Zhihui; Wong, Chee Hong; Ngan, Chew Yee; Wang, Ping; Ruan, Xiaoan; Wei, Chia-Lin; Ruan, Yijun*. Multiplex chromatin interactions with single-molecule precision. Nature, 2019, 566(7745): 558-562.

9: Zheng, Meizhen; Zheng, L-M; Zeng, Yi-Xin*. SCC-112 gene is involved in tumor progression and promotes the cell proliferation in G2/M phase. Journal of Cancer Research and Clinical Oncology, 2008, 134: 453-462.

10: Zheng, Meizhen; Qin, Hai-De; Yu, Xing-Juan; Zhang, Ru-Hua; Chen, Li-Zhen; Feng, Qi-Sheng; Zeng, Yi-Xin*. Haplotype of gene Nedd4 binding protein 2 associated with sporadic nasopharyngeal carcinoma in the Southern Chinese population. Journal of Translational Medicine, 2007, 5: 7.

11: Zheng, Meizhen; Jiang, Jianwei*. Progress in unmethylated immunostimulatory oligodeoxynucletides. Progress in Biochemistry and Biophysics, 2003, 30(2): 190-193.

Co-Author:

12: Chen, Rui; Shi, Xinyao; Yao, Xiangrui; Gao, Tong; Huang, Guangyu; Ning, Duo; Cao, Zemin; Xu, Youxin; Liang, Weizheng; Tian, Simon Zhongyuan; Zhu, Qionghua; Fang, Liang; Zheng, Meizhen; Hu, Yuhui; Cui, Huanhuan*; Chen, Wei*. Specific multivalent molecules boost CRISPR-mediated transcriptional activation. Nature Communications, 2024, 15(1): 7222.

13: Li, Zhuowen#; Long, Yanping#; Yu, Yiming; Zhang, Fei; Zhang, Hong; Liu, Zhijian; Jia, Jinbu; Mo, Weipeng; Tian, Simon Zhongyuan; Zheng, Meizhen; Zhai, Jixian*. Pore-C simultaneously captures genome-wide multi-way chromatin interaction and associated DNA methylation status in Arabidopsis. Plant Biotechnology Journal, 2022, 20(6): 1009.

14: Chen, Tao#; Lin, Yu-Xin#; Zha, Yan#; Sun, Ying; Tian, Jinxiu; Yang, Zhiying; Lin, Shan-Wen; Yu, Fuxun; Chen, Zi-Sheng; Kuang, Bo-Hua; Lei, Jin-Ju; Nie, Ying-Jie; Xu, Yonghao; Tian, Dong-Bo; Li, Ying-Zi; Yang, Bin; Xu, Qiang; Yang, Li; Zhong, Nanshan; Zheng, Meizhen; Li, Yimin; Zhao, Jincun; Zhang, Xiang-Yan; Feng, Lin*. A low-producing haplotype of interleukin-6 disrupting CTCF binding is protective against severe COVID-19. MBio, 2021, 12(5).

15: Wang, Ping#; Tang, Zhonghui#; Lee, Byoungkoo; Zhu, Jacqueline Jufen; Cai, Liuyang; Szalaj, Przemyslaw; Tian, Simon Zhongyuan; Zheng, Meizhen; Plewczynski, Dariusz; Ruan, Xiaoan; Liu, Edison T; Wei, Chia-Lin; Ruan, Yijun*. Chromatin topology reorganization and transcription repression by PML-RARα in acute promyeloid leukemia. Genome Biology, 2020, 21: Jan-21.

16: Kim, Minji; Zheng, Meizhen; Tian, Simon Zhongyuan; Lee, Byoungkoo; Chuang, Jeffrey H; Ruan, Yijun*. MIA-Sig: multiplex chromatin interaction analysis by signal processing and statistical algorithms. Genome Biology, 2019, 20: Jan-13.

17: Li, Xingwang#; Luo, Oscar Junhong#; Wang, Ping; Zheng, Meizhen; Wang, Danjuan; Piecuch, Emaly; Zhu, Jacqueline Jufen; Tian, Simon Zhongyuan; Tang, Zhonghui; Li, Guoliang; Ruan, Yijun*. Long-read ChIA-PET for base-pair-resolution mapping of haplotype-specific chromatin interactions. Nature Protocols, 2017, 12(5): 899-915.

18: Dekker, Job; Belmont, Andrew S; Guttman, Mitchell; Leshyk, Victor O; Lis, John T; Lomvardas, Stavros; Mirny, Leonid A; O’Shea, Clodagh C; Park, Peter J; Ren, Bing; Politz, Joan C Ritland; Shendure, Jay; Zhong, Sheng; 4D Nucleome Network. The 4D nucleome project. Nature, 2017, 549(7671): 219-226. *** Zheng, Meizhen is a member of the 4D Nucleome Network***

19: Tang, Zhonghui#; Luo, Oscar Junhong#; Li, Xingwang#; Zheng, Meizhen; Zhu, Jacqueline Jufen; Szalaj, Przemyslaw; Trzaskoma, Pawel; Magalska, Adriana; Wlodarczyk, Jakub; Ruszczycki, Blazej; Michalski, Paul; Piecuch, Emaly; Wang, Ping; Wang, Danjuan; Tian, Simon Zhongyuan; Penrad-Mobayed, May; Sachs, Laurent M; Ruan, Xiaoan; Wei, Chia-Lin; Liu, Edison T; Wilczynski, Grzegorz M; Plewczynski, Dariusz; Li, Guoliang; Ruan, Yijun*. CTCF-mediated human 3D genome architecture reveals chromatin topology for transcription. Cell, 2015, 163(7): 1611-1627.

20: Li, Guoliang#; Ruan, Xiaoan#; Auerbach, Raymond K#; Sandhu, Kuljeet Singh#; Zheng, Meizhen; Wang, Ping; Poh, Huay Mei; Goh, Yufen; Lim, Joanne; Zhang, Jingyao; Sim, Hui Shan; Peh, Su Qin; Mulawadi, Fabianus Hendriyan; Ong, Chin Thing; Orlov, Yuriy L; Hong, Shuzhen; Zhang, Zhizhuo; Landt, Steve; Raha, Debasish; Euskirchen, Ghia; Wei, Chia-Lin; Ge, Weihong; Wang, Huaien; Davis, Carrie; Fisher-Aylor, Katherine I; Mortazavi, Ali; Gerstein, Mark; Gingeras, Thomas; Wold, Barbara; Sun, Yi; Fullwood, Melissa J; Cheung, Edwin; Liu, Edison; Sung, Wing-Kin; Snyder, Michael*; Ruan, Yijun*. Extensive promoter-centered chromatin interactions provide a topological basis for transcription regulation. Cell, 2012, 148(1): 84-98.

21: ENCODE Project Consortium. An integrated encyclopedia of DNA elements in the human genome. Nature, 2012, 489(7414): 57. Zheng, Meizhen is a member of the ENCODE Project Consortium

22: Zeng, Huilan*; Han, Xinai; Gu, Chen; Jiang, Jianwei; Zheng, Meizhen; Yan, Yuxia; Zeng, Yaoying; Di, Jingfang. Delivery and immunologic efficacy of CpG ODN targeting B lymphocytes of umbilical cord blood by CD40 ligand-receptor-mediated carrier. Chinese Journal of Tissue Engineering Research, 2009: 974-978.

23: Zeng, Huilan*; Zhu, Kanger; Jiang, Jianwei; Gu, Huaimin; Cai, Jiye; Cheng, Longqiu; Yang, Zhigang; Zheng, Meizhen. The prevention of acute graft versus host disease by Rhodamine 123-mediated photodynamic therapy. Chinese Journal of Pathophysiology, 2000.

24: Jiang, Jianwei*; Zheng, Meizhen; Zeng, Huilan; Zeng, Yaoying; Di, Jingfang; Yan, Yuxia; Wu, Meiyu. Preparation of CD40L-PLL-CpG ODN conjugated complex and its targeting B lymphocytes. Chinese Journal of Pathophysiology, 2005.

Patent：

◆ Compositions for RNA-chromatin interaction analysis and uses thereof. Yijun Ruan, Meizhen ZHENG, Junhong Oscar LUO. US Patent 9938565.

◆ Multiplex Chromatin Interaction Analysis with Single Molecule Precision. Meizhen ZHENG, Yijun Ruan, Simon Zhongyuan Tian, Chia-Lin Wei. US Patent Application number 16233860.

◆RNA-mediated Chromatin Conformation Capture Method. Meizhen Zheng, Zhongyuan Tian. China Patent 202210182253.X

◆A Method for Displaying the Microstructure of Single-Molecule Chromatin. Zhongyuan Tian, Meizhen Zheng. China Patent 202210403899.6