PUBLICATIONS Impact factors are based on the year of publication
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. Impact factor: 9.4; Corresponding author
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. Impact factor: 13.6; Corresponding author
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. Impact factor: 6.208; Corresponding author
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. Impact factor: 6.684; Corresponding author
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. Impact factor: 9.5; Corresponding author
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. Impact factor: 13.994; Corresponding author
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. Impact factor: 6.684; Corresponding author
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. Impact factor: 69.504; First author
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. Impact factor: 4.3; First author
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. Impact factor: 6.800; First author
11: Zheng, Meizhen; Jiang, Jianwei*. Progress in unmethylated immunostimulatory oligodeoxynucletides. Progress in Biochemistry and Biophysics, 2003, 30(2): 190-193. Impact factor (Chinese): 1.0~1.5; First author
Other
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. Impact factor: 16.6
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. Impact factor: 8.154
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). Impact factor: 6.4
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. Impact factor: 14.3
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. Impact factor: 14.3
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. Impact factor: 14.3
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. Impact factor: 69.504; 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. Impact factor: 66.850
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. Impact factor: 66.850
21: ENCODE Project Consortium. An integrated encyclopedia of DNA elements in the human genome. Nature, 2012, 489(7414): 57. Impact factor: 69.504; 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. Impact factor (Chinese): 1.0~1.5
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. Impact factor (Chinese): 1.0~1.5
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. Impact factor (Chinese): 1.0~1.5