Group leader
Dr. HAN Dali is a professor at Beijing Institute of Genomics, Chinese Academy of Sciences (CAS). Dr HAN received his B.S degree from University of Science and Technology of China in 2007 and Ph.D. degree in Bioinformatics from Institute of Genetics and Developmental Biology, CAS in 2012. Then he performed his postdoctoral research in the laboratories of Dr. He Chuan at the University of Chicago. He was recruited as a principal investigator in BIG, CAS from 2017.
Introduction
Dr. HAN’s research interest is to combine medical biology and bioinformatics to investigate the roles and biological significance of novel nucleic acid modifications in anti-tumor immunity, stem cells & organ regeneration and epigenetic therapy. He has published more than 20 papers in the peer-reviewed journals including Nature, Science, Nature Methods, Cell Research, Molecular Cell, etc. He was elected as the National Science Fund for Excellent Young Scholars (2019) and Member of Millions of Talent Projects National candidates (2020).
Current research interests
1. Based on the new high-throughput sequencing technology, the functions of newly identified epigenetic regulators were studied, and the regulation mechanism of novel nucleic acid modifications on gene expression was interpreted (Dai, et al. Nature Methods 2017; Han, et al. Molecular Cell 2016; Xia, et al. Nature Methods 2015).
2. Interpreting the precise regulatory mechanism of RNA modification in the maintenance, transformation and reprogramming of embryonic stem cells. which is applied to stem cell medical science and tissue and organ regeneration (Liu, et al. Science 2020).
3. To study the dynamic changes of epigenetic modification of tumor cells and immune cells in tumor microenvironment, and to elucidate the mechanism of tumor immune escape (Han, et al. Nature 2019).
4. Develop machine learning and artificial intelligence algorithms, integrate epigenome, epigenome data and clinical medical information to accurately predict, diagnose and treat cancer, and realize intelligent medical treatment (Tian, et al. Cell Research 2018; Xu, et al. J. Chem. Inf. Model. 2020).
Selected Publications
1. Jun Liu#, Xiaoyang Dou#, Chuanyuan Chen#, Chuan Chen, Chang Liu, Meng Michelle Xu, Siqi Zhao, Bin Shen, Yawei Gao*, Dali Han*, Chuan He*. N6-methyladenosine of chromosome-associated regulatory RNA regulates chromatin state and transcription. Science, 2020, 367(6477): 580-586.
2. Chi Xu#, Zunhui Ke#, Chuandong Liu#, Zhihao Wang#, Denghui Liu, Lei Zhang, Jingning Wang, Wenjun He, Zhimeng Xu, Yanqing Li, Yanan Yang, Zhaowei Huang, Panjing Lv, Xin Wang, Dali Han*, Yan Li*, Nan Qiao*, and Bing Liu*. Systemic In Silico Screening in Drug Discovery for Coronavirus Disease (COVID-19) with an Online Interactive Web Server. Journal of Chemical Information and Modeling, 2020 60 (12), 5735-5745.
3. 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*. Anti-tumour immunity controlled through mRNA m6A methylation and YTHDF1 in dendritic cells. Nature, 2019, 566(7743): 270-274.
4. Tongnian Gu#, Siqi Zhao#, Yishuang Pi, Weizhong Chen, Chuanyuan Chen, Qian Liu, Min Li, Dali Han* and Quanjiang Ji*. Highly efficient base editing in Staphylococcus aureus using an engineered CRISPR RNA-guided cytidine deaminase. Chemical Science, 2018, 9(12): 3248-3253.
5. Xin Tian#, Baofa Sun#, Chuanyuan Chen#, Chunchun Gao#, Ji Zhang#, Xingyu Lu#, Linchen Wang, Xiangnan Li, Yurong Xing, Ruijuan Liu, Xiao Han, Zheng Qi, Xiaojian Zhang, Chuan He, Dali Han*, Yun-Gui Yang*, Quancheng Kan*. Circulating tumor DNA 5-hydroxymethylcytosine as a novel diagnostic biomarker for esophageal cancer. Cell Research, 2018, 28(5): 597-600.
6. Qing Dai#, Sharon Moshitch-Moshkovitz#, Dali Han#, Nitzan Kol, Ninette Amariglio, Gideon Rechavi, Dan Dominissini*, Chuan He*. Nm-seq maps 2'O-methylation sites in human mRNA with base precision. Nature Methods, 2017, 14(7):695-698.
7. Dali Han#, Xingyu Lu#, Alan H. Shih#, Ji Nie, Qiancheng You, Meng Michelle Xu, Ari M. Melnick, Ross L. Levine*, Chuan He*. A highly sensitive and robust method for genome-wide 5hmC profiling of rare cell populations. Molecular Cell, 2016, 63(4): 1-9.
8. Bo Xia#, Dali Han#, Xingyu Lu#, Zhaozhu Sun, Ankun Zhou, Qiangzong Yin, Hu Zeng, Menghao Liu, Xiang Jiang, Wei Xie, Chuan He*, Chengqi Yi* Bisulfite-free, Base-resolution analysis of 5-formylcytosine at the genome scale. Nature Methods, 2015, 12(11):1047-1050.
9. Xingyu Lu#, Dali Han#, Boxuan Simen Zhao#, ChunXiao Song, LiSheng Zhang, Louis C Dore, Chuan He*. Base-resolution maps of 5-formylcytosine and 5-carboxylcytosine reveal genome-wide DNA demethylation dynamics. Cell Research, 2015, 25(3): 386-389.
10. Ming Su#, Dali Han#, Jerome BoydKirkup, Xiaoming Yu, JingDong J Han*. Evolution of Alu Elements toward Enhancers. Cell Reports, 2014, 7(2): 376-385.
11. Yixing Han# , Dali Han# , Zheng Yan , Jerome D. Boyd-Kirkup , Christopher D Green , Philipp Khaitovich , Jing-Dong J. Han*. Stress-associated H3K4 methylation accumulates during postnatal development and aging of rhesus macaque brain. Aging cell, 2012, 11(6): 1055-1064.
12. Yi Liu#, Dali Han#, Yixing Han#, Zheng Yan, Bin Xie, Jing Li, Nan Qiao, Haiyang Hu, Philipp Khaitovich, Yuan Gao, Jing-Dong J Han*. Ab initio identification of transcription start sites in the Rhesus macaque genome by histone modification and RNA-Seq. Nucleic Acids Research, 2011, 39(4): 1408-1418.
13. Meng Michelle Xu, Yang Pu, Dali Han, Yaoyao Shi, Xuezhi Cao, Hua Liang, Xiang Chen, Xiao-Dong Li, Liufu Deng, Zhijian J. Chen, Ralph R. Weichselbaum, and Yang-Xin Fu*.Dendritic Cells but Not Macrophages Sense Tumor Mitochondrial DNA for Cross-priming through Signal Regulatory Protein alpha Signaling. Immunity, 2017, 47(2): 363–373.e5.
14. Fange Liu#, Wesley Clark, Guanzheng Luo, Xiaoyun Wang, Ye Fu, Jiangbo Wei, Xiao Wang, Ziyang Hao, Qing Dai, Guanqun Zheng, Honghui Ma, Dali Han, Molly Evans, Arne Klungland ,Tao Pan* , Chuan He*. ALKBH1-mediated tRNA demethylation regulates translation. Cell, 2016, 167(7): 816-828.
15. Dan Dominissini # *, Sigrid Nachtergaele# , Sharon Moshitch-Moshkovitz# , Eyal Peer , Nitzan Kol, Moshe Shay Ben-Haim , Qing Dai , Ayelet Di Segni , Mali Salmon-Divon , Wesley C. Clark, Guanqun Zheng , Tao Pan , Oz Solomon , Eran Eyal , Vera Hershkovitz , Dali Han , Louis C. Doré , Ninette Amariglio , Gideon Rechavi* , Chuan He*. The dynamic N1-methyladenosine methylome in eukaryotic messenger RNA. Nature, 2016, 530(7591): 441-446.
16. Jianzhao Liu# , Yuanxiang Zhu# , Guan-Zheng Luo# , Xinxia Wang# , Yanan Yue , Xiaona Wang , Xin Zong , Kai Chen , Hang Yin , Ye Fu , Dali Han , Yizhen Wang* , Dahua Chen* , Chuan He*. Abundant DNA 6mA methylation during early embryogenesis of zebrafish and pig. Nature communications, 2016, 7, 13052.
17. Qing Dai# , Paul J. Sanstead# , Chunte Sam Peng# , Dali Han , Chuan He* , Andrei Tokmakoff*. Weakened N3 hydrogen bonding by 5-formylcytosine and 5-carboxylcytosine reduces their base-pairing stability. ACS chemical biology, 2016, 11(2): 470-477.
18. Xiao Wang# , Boxuan Simen Zhao# , Ian A. Roundtree , Zhike Lu , Dali Han , Honghui Ma , Xiaocheng Weng , Kai Chen , Hailing Shi , Chuan He*. N6-methyladenosine Modulates Messenger RNA Translation Efficiency. Cell, 2015, 161(6): 1388-1399.
19. Ye Fu# , Guanzheng Luo# , Kai Chen , Xin Deng , Miao Yu , Dali Han , Ziyang Hao , Jianzhao Liu , Xingyu Lu , Louis C Doré , Xiaocheng Weng , Quanjiang Ji , Laurens Mets , Chuan He*. N6-Methyldeoxyadenosine Marks Active Transcription Start Sites in Chlamydomonas. Cell, 2015, 161(4): 879-892.
20. Jing Wang# , Cheng Luo# , Changliang Shan# , Qiancheng You# , Junyan Lu , Shannon Elf , Yu Zhou , Yi Wen , Jan L. Vinkenborg , Jun Fan , Heebum Kang , Ruiting Lin , Dali Han , Yuxin Xie, Jason Karpus , Shijie Chen , Shisheng Ouyang , Chihao Luan , Naixia Zhang , Hong Ding, Maarten Merkx , Hong Liu , Jing Chen* , Hualiang Jiang* , Chuan He*. Inhibition of human copper trafficking by a small molecule significantly attenuates cancer cell proliferation. Nature Chemistry, 2015, 7(12): 968-979.
21. Kai Chen# , Zhike Lu# , Xiao Wang , Ye Fu , Guan-Zheng Luo , Nian Liu , Dali Han , Dan Dominissini , Qing Dai , Tao Pan , Chuan He*. High-Resolution N6-Methyladenosine (m6A) map using photo-crosslinking-assisted m6A sequencing. Angewandte Chemie International Edition in English, 2015, 54(5): 1587-1590.
22. Jianzhao Liu#, Yanan Yue#, Dali Han, Xiao Wang, Ye Fu, Liang Zhang, Guifang Jia, Miao Yu, Zhike Lu, Xin Deng, Qing Dai, Weizhong Chen, Chuan He*. A METTL3-METTL14 complex mediates mammalian nuclear RNA N-6-adenosine methylation. Nature Chemical Biology, 2014, 10(2): 93-95.
23. Xiao Wang, Zhike Lu, Adrian Gomez, Gary C Hon, Yanan Yue, Dali Han, Ye Fu, Marc Parisien, Qing Dai, Guifang Jia, Bing Ren, Tao Pan, Chuan He*. N-6-methyladenosine-dependent regulation of messenger RNA stability. Nature, 2014, 505(7481): 117-120.
24. Chunyu Jin# , Jing Li# , Christopher D Green# , Xiaoming Yu , Xia Tang , Dali Han , Bo Xian , Dan Wang , Xinxin Huang , Xiongwen Cao , Zheng Yan , Lei Hou , Jiancheng Liu , Nicholas Shukeir , Philipp Khaitovich , Charlie D. Chen , Hong Zhang , Thomas Jenuwein , Jing-Dong J. Han*. Histone Demethylase UTX-1 Regulates C. elegans Life Span by Targeting the Insulin/IGF-1 Signaling Pathway. Cell metabolism, 2011, 14(2): 161-172.
