Research
Our lab is focused on studying the molecular mechanism and biological functions of RNA modifications and non-coding RNAs. We integrate multiple research approaches, including epigenetics, molecular biology, and high-throughput sequencing, to reveal novel regulatory pathways of RNA modifications/ncRNAs on chromatin state and gene transcription, and further explore their biological significance in stem cell differentiation, anti-tumor immunity, autoimmune diseases, cancer, and aging.
Our Team
Jun Liu
Principal Investigator
Publications
2025
Photocatalytic labelling-enabled subcellular-resolved RNA profiling and synchronous multi-omics investigation
Yunpeng Bi, Lishan Yu, Qidong Deng, Linghao Kong, Fuhu Guo, Yuchen Zhang, Ruixiang Wang, Peng R. Chen, Jun Liu, Xinyuan Fan
Nature Chemistry
DOI
2025
N6-methyladenosine on L1PA governs the trans-silencing of LTRs and restrains totipotency in naive human embryonic stem cells
Xuehao Zhu, Zhanhe Chang, Weide Xiao, Xinbao Zhang, Mingli Ma, Jiang Wu, Jindian Hu, Yan Bi, Xiaochen Kou, Yanhong Zhao, Yifan Sheng, Baoxing Dong, Jiaxing Sun, Che Chen, You Wu, Xuelian Liu, Wenqing Ding, Kaiyuan Jia, Yingfan Yao, Lihua Sun, Xianbin Yu, Hong Wang, Jun Liu, Yixuan Wang, Shaorong Gao, Yawei Gao
Cell Stem Cell
DOI
2025
Decoding N6-methyladenosine’s dynamic role in stem cell fate and early embryo development: insights into RNA–chromatin interactions
Lei Yang, Mingli Ma, Yawei Gao, Jun Liu
Current Opinion in Genetics & Development
DOI
2025
Monocyte–macrophage dynamics as key in disparate lung and peripheral immune responses in severe anti‐melanoma differentiation‐associated gene 5‐positive dermatomyositis‐related interstitial lung disease
Jia Shi, Xiaoya Pei, Jinmin Peng, Chanyuan Wu, Yulin Lv, Xiaoman Wang, Yangzhong Zhou, Xueting Yuan, Xingbei Dong, Shuang Zhou, Dong Xu, Jiuliang Zhao, Jun Liu, Jiao Huang, Bin Du, Chen Yao, Xiaofeng Zeng, Mengtao Li, Houzao Chen, Qian Wang
Clinical and Translational Medicine
DOI
2025
BASAL: a universal mapping algorithm for nucleotide base-conversion sequencing
Moping Xu, Xiaoyang Liu, Miao Wang, Tingting Luo, Yawei Gao, Jun Liu, Jiejun Shi
Nucleic Acids Research
DOI
2025
FOCAS: Transcriptome-wide screening of individual m6A sites functionally dissects epitranscriptomic control of gene expression in cancer
Xinning Zhang, Yifan Zhang, Xinyu Liu, Chang Liu, Ying Liu, Yuan He, Yuhang Qiu, Lida Sun, Jing Hu, Yawei Gao, Wensheng Wei, Jun Liu
Cell
DOI
2024
m6A-modified cenRNA stabilizes CENPA to ensure centromere integrity in cancer cells
Zihong Kang, Ruimeng Li, Chang Liu, Xiaozhe Dong, Yuxuan Hu, Lei Xu, Xinyu Liu, Yunfan Xiang, Liming Gao, Wenzhe Si, Lei Wang, Qing Li, Liang Zhang, Huan Wang, Xuerui Yang, Jun Liu
Cell
DOI
2024
IGF2BP3 promotes mRNA degradation through internal m7G modification
Chang Liu, Xiaoyang Dou, Yutao Zhao, Linda Zhang, Lisheng Zhang, Qing Dai, Jun Liu, Tong Wu, Yu Xiao, Chuan He
Nature Communications
DOI
2023
METTL14 is a chromatin regulator independent of its RNA N 6-methyladenosine methyltransferase activity
Xiaoyang Dou, Lulu Huang, Yu Xiao, Chang Liu, Yini Li, Xinning Zhang, Lishan Yu, Ran Zhao, Lei Yang, Chuan Chen, Xianbin Yu, Boyang Gao, Meijie Qi, Yawei Gao, Bin Shen, Shuying Sun, Chuan He, Jun Liu
Protein & Cell
DOI
2023
RBFOX2 recognizes N6-methyladenosine to suppress transcription and block myeloid leukaemia differentiation
Xiaoyang Dou, Yu Xiao, Chao Shen, Kitty Wang, Tong Wu, Chang Liu, Yini Li, Xianbin Yu, Jun Liu, Qing Dai, Kinga Pajdzik, Chang Ye, Ruiqi Ge, Boyang Gao, Jianhua Yu, Shuying Sun, Mengjie Chen, Jianjun Chen, Chuan He
Nature Cell Biology
DOI
2023
Globally reduced N6-methyladenosine (m6A) in C9ORF72-ALS/FTD dysregulates RNA metabolism and contributes to neurodegeneration
Yini Li, Xiaoyang Dou, Jun Liu, Yu Xiao, Zhe Zhang, Lindsey Hayes, Rong Wu, Xiujuan Fu, Yingzhi Ye, Bing Yang, Lyle W. Ostrow, Chuan He, Shuying Sun
Nature Neuroscience
DOI
2022
FTO mediates LINE1 m 6 A demethylation and chromatin regulation in mESCs and mouse development
Jiangbo Wei, Xianbin Yu, Lei Yang, Xuelian Liu, Boyang Gao, Boxian Huang, Xiaoyang Dou, Jun Liu, Zhongyu Zou, Xiao-Long Cui, Li-Sheng Zhang, Xingsen Zhao, Qinzhe Liu, P. Cody He, Caraline Sepich-Poore, Nicole Zhong, Wenqiang Liu, Yanhe Li, Xiaochen Kou, Yanhong Zhao, You Wu, Xuejun Cheng, Chuan Chen, Yiming An, Xueyang Dong, Huanyu Wang, Qiang Shu, Ziyang Hao, Tao Duan, Yu-Ying He, Xuekun Li, Shaorong Gao, Yawei Gao, Chuan He
Science
DOI
2021
The loss of RNA N6-adenosine methyltransferase Mettl14 in tumor-associated macrophages promotes CD8+ T cell dysfunction and tumor growth
Lihui Dong, Chuanyuan Chen, Yawei Zhang, Peijin Guo, Zhenghang Wang, Jian Li, Yi Liu, Jun Liu, Renbao Chang, Yilin Li, Guanghao Liang, Weiyi Lai, Mengxue Sun, Urszula Dougherty, Marc B. Bissonnette, Hailin Wang, Lin Shen, Meng Michelle Xu, Dali Han
Cancer Cell
DOI
2021
Tumors exploit FTO-mediated regulation of glycolytic metabolism to evade immune surveillance
Yi Liu, Guanghao Liang, Hongjiao Xu, Wenxin Dong, Ze Dong, Zhiwei Qiu, Zihao Zhang, Fangle Li, Yue Huang, Yilin Li, Jun Wu, Shenyi Yin, Yawei Zhang, Peijin Guo, Jun Liu, Jianzhong Jeff Xi, Peng Jiang, Dali Han, Cai-Guang Yang, Meng Michelle Xu
Cell Metabolism
DOI
2021
Nuclear m6A reader YTHDC1 regulates the scaffold function of LINE1 RNA in mouse ESCs and early embryos
Chuan Chen, Wenqiang Liu, Jiayin Guo, Yuanyuan Liu, Xuelian Liu, Jun Liu, Xiaoyang Dou, Rongrong Le, Yixin Huang, Chong Li, Lingyue Yang, Xiaochen Kou, Yanhong Zhao, You Wu, Jiayu Chen, Hong Wang, Bin Shen, Yawei Gao, Shaorong Gao
Protein & Cell
DOI
2021
Pooled CRISPR screening identifies m 6 A as a positive regulator of macrophage activation
Jiyu Tong, Xuefei Wang, Yongbo Liu, Xingxing Ren, Anmin Wang, Zonggui Chen, Jiameng Yao, Kaiqiong Mao, Tingting Liu, Fei-Long Meng, Wen Pan, Qiang Zou, Jun Liu, Yu Zhou, Qiang Xia, Richard A. Flavell, Shu Zhu, Hua-Bing Li
Science Advances
DOI
2021
Decoding the epitranscriptional landscape from native RNA sequences
Piroon Jenjaroenpun, Thidathip Wongsurawat, Taylor D Wadley, Trudy M Wassenaar, Jun Liu, Qing Dai, Visanu Wanchai, Nisreen S Akel, Azemat Jamshidi-Parsian, Aime T Franco, Gunnar Boysen, Michael L Jennings, David W Ussery, Chuan He, Intawat Nookaew
Nucleic Acids Research
DOI
2020
Upregulation of METTL14 mediates the elevation of PERP mRNA N6 adenosine methylation promoting the growth and metastasis of pancreatic cancer
Min Wang, Jun Liu, Yan Zhao, Ruizhi He, Xiaodong Xu, Xingjun Guo, Xu Li, Simiao Xu, Ji Miao, Jianpin Guo, Hang Zhang, Jun Gong, Feng Zhu, Rui Tian, Chengjian Shi, Feng Peng, Yechen Feng, Shuo Yu, Yu Xie, Jianxin Jiang, Min Li, Wenyi Wei, Chuan He, Renyi Qin
Molecular Cancer
DOI
2020
DNA 5-Methylcytosine-Specific Amplification and Sequencing
Chang Liu, Xiaolong Cui, Boxuan Simen Zhao, Pradnya Narkhede, Yawei Gao, Jun Liu, Xiaoyang Dou, Qing Dai, Li-Sheng Zhang, Chuan He
Journal of the American Chemical Society
DOI
2020
N 6 -methyladenosine of chromosome-associated regulatory RNA regulates chromatin state and transcription
Jun Liu, Xiaoyang Dou, Chuanyuan Chen, Chuan Chen, Chang Liu, Meng Michelle Xu, Siqi Zhao, Bin Shen, Yawei Gao, Dali Han, Chuan He
Science
DOI
2019
YTHDF2 reduction fuels inflammation and vascular abnormalization in hepatocellular carcinoma
Jiajie Hou, He Zhang, Jun Liu, Zhenjun Zhao, Jianye Wang, Zhike Lu, Bian Hu, Jiankui Zhou, Zhicong Zhao, Mingxuan Feng, Haiyan Zhang, Bin Shen, Xingxu Huang, Beicheng Sun, Chuan He, Qiang Xia
Molecular Cancer
DOI
2019
METTL14 is essential for β-cell survival and insulin secretion
Jun Liu, Guanzheng Luo, Juan Sun, Lili Men, Honggang Ye, Chuan He, Decheng Ren
Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease
DOI
2019
Detailed modeling of positive selection improves detection of cancer driver genes
Siming Zhao, Jun Liu, Pranav Nanga, Yuwen Liu, A. Ercument Cicek, Nicholas Knoblauch, Chuan He, Matthew Stephens, Xin He
Nature Communications
DOI
2019
Regulation of Gene Expression by N-methyladenosine in Cancer
Jun Liu, Bryan T. Harada, Chuan He
Trends in Cell Biology
DOI
2019
Histone H3 trimethylation at lysine 36 guides m6A RNA modification co-transcriptionally
Huilin Huang, Hengyou Weng, Keren Zhou, Tong Wu, Boxuan Simen Zhao, Mingli Sun, Zhenhua Chen, Xiaolan Deng, Gang Xiao, Franziska Auer, Lars Klemm, Huizhe Wu, Zhixiang Zuo, Xi Qin, Yunzhu Dong, Yile Zhou, Hanjun Qin, Shu Tao, Juan Du, Jun Liu, Zhike Lu, Hang Yin, Ana Mesquita, Celvie L. Yuan, Yueh-Chiang Hu, Wenju Sun, Rui Su, Lei Dong, Chao Shen, Chenying Li, Ying Qing, Xi Jiang, Xiwei Wu, Miao Sun, Jun-Lin Guan, Lianghu Qu, Minjie Wei, Markus Müschen, Gang Huang, Chuan He, Jianhua Yang, Jianjun Chen
Nature
DOI
2019
Structural insights into FTO’s catalytic mechanism for the demethylation of multiple RNA substrates
Xiao Zhang, Lian-Huan Wei, Yuxin Wang, Yu Xiao, Jun Liu, Wei Zhang, Ning Yan, Gubu Amu, Xinjing Tang, Liang Zhang, Guifang Jia
Proceedings of the National Academy of Sciences
DOI
2019
Anti-tumour immunity controlled through mRNA m6A methylation and YTHDF1 in dendritic cells
Dali Han, Jun Liu, Chuanyuan Chen, Lihui Dong, Yi Liu, Renbao Chang, Xiaona Huang, Yuanyuan Liu, Jianying Wang, Urszula Dougherty, Marc B. Bissonnette, Bin Shen, Ralph R. Weichselbaum, Meng Michelle Xu, Chuan He
Nature
DOI
2018
m6A mRNA methylation regulates AKT activity to promote the proliferation and tumorigenicity of endometrial cancer
Jun Liu, Mark A. Eckert, Bryan T. Harada, Song-Mei Liu, Zhike Lu, Kangkang Yu, Samantha M. Tienda, Agnieszka Chryplewicz, Allen C. Zhu, Ying Yang, Jing-Tao Huang, Shao-Min Chen, Zhi-Gao Xu, Xiao-Hua Leng, Xue-Chen Yu, Jie Cao, Zezhou Zhang, Jianzhao Liu, Ernst Lengyel, Chuan He
Nature Cell Biology
DOI
2018
VIRMA mediates preferential m6A mRNA methylation in 3′UTR and near stop codon and associates with alternative polyadenylation
Yanan Yue, Jun Liu, Xiaolong Cui, Jie Cao, Guanzheng Luo, Zezhou Zhang, Tao Cheng, Minsong Gao, Xiao Shu, Honghui Ma, Fengqin Wang, Xinxia Wang, Bin Shen, Yizhen Wang, Xinhua Feng, Chuan He, Jianzhao Liu
Cell Discovery
DOI
2014
Unique features of the m6A methylome in Arabidopsis thaliana
Guan-Zheng Luo, Alice MacQueen, Guanqun Zheng, Hongchao Duan, Louis C. Dore, Zhike Lu, Jun Liu, Kai Chen, Guifang Jia, Joy Bergelson, Chuan He
Nature Communications
DOI
2014
Methylation Modifications in Eukaryotic Messenger RNA
Jun Liu, Guifang Jia
Journal of Genetics and Genomics
DOI
2013
Dynamics of 5-hydroxymethylcytosine during mouse spermatogenesis
Haiyun Gan, Lu Wen, Shangying Liao, Xiwen Lin, Tingting Ma, Jun Liu, Chun-xiao Song, Min Wang, Chuan He, Chunsheng Han, Fuchou Tang
Nature Communications
DOI
2013
ALKBH5 Is a Mammalian RNA Demethylase that Impacts RNA Metabolism and Mouse Fertility
Guanqun Zheng, John Arne Dahl, Yamei Niu, Peter Fedorcsak, Chun-Min Huang, Charles J. Li, Cathrine B. Vågbø, Yue Shi, Wen-Ling Wang, Shu-Hui Song, Zhike Lu, Ralph P.G. Bosmans, Qing Dai, Ya-Juan Hao, Xin Yang, Wen-Ming Zhao, Wei-Min Tong, Xiu-Jie Wang, Florian Bogdan, Kari Furu, Ye Fu, Guifang Jia, Xu Zhao, Jun Liu, Hans E. Krokan, Arne Klungland, Yun-Gui Yang, Chuan He
Molecular Cell
DOI
2011
A genetically incorporated crosslinker reveals chaperone cooperation in acid resistance
Meng Zhang, Shixian Lin, Xinwen Song, Jun Liu, Ye Fu, Xi Ge, Xinmiao Fu, Zengyi Chang, Peng R Chen
Nature Chemical Biology
DOI
2009
Metal-Driven Hierarchical Self-Assembled One-Dimensional Nanohelices
Yan Qiao, Yiyang Lin, Yijie Wang, Zhiyi Yang, Jun Liu, Jiang Zhou, Yun Yan, Jianbin Huang
Nano Letters
DOI
Contact
刘君 Lab
Sycamore Research Institute of Life Sciences
No. 88 Zhangjiang Road, Pudong New Area
Shanghai, China