"研究方向： 我们主要围绕疾病的基因组学基础开展下列三个方面的研究： 1）生物时空组学技术与生物信息方法研究。 2）疾病的基因组空间结构与功能研究。 3）疾病的个体化诊疗新策略研究。 主要研究成果： 近期我们在Nature Methods（SEAM,2021）、Nature Communications（MyoD, 2022、BL-Hi-C, 2017）、Genome Biology（Hi-MS,2021、3CPET, 2015）、Genome Research（FIND, 2018）、Nucleic Acids Research（PhaSepDB, 2020、HiCDB, 2018）、Analytical Chemistry（PECAN，2018）等期刊发表基因组技术、生物信息方法、基因组调控机理相关论文五十余篇，获得中国发明专利3项，获得软件著作权2项。研究成果入选2018年度、2021年度中国生物信息学十大进展。"

1. Ruiting Wang#, Fengling Chen#, Qian Chen#, Xin Wan, Minglei Shi, Antony K. Chen, Zhao Ma, Guohong Li, Min Wang, Yachen Ying, Qinyao Liu, Hu Li, Xu Zhang, Jinbiao Ma, Jiayun Zhong, Meihong Chen, Michael Q. Zhang*, Yong Zhang*, Yang Chen*, Dahai Zhu*. Nature Communications, 2022.13.205. link

2. Xuezhu Wang#, Yucheng Dong#, Yongchangzheng, Yang Chen*. Multi-omics Metabolic and Epigenetics Regulatory Network in Cancer: A Systems Biology Perspective. Journal of Genetics and Genomics, 2021.520-530. link

3. Zhiyuan Yuan#, Qiming Zhou#, Lesi Cai#, Lin Pan, Weiliang Sun, Shiwei Qumu , Si Yu, Jiaxin Feng, Hansen Zhao, Yongchang Zheng, Minglei Shi, Shao Li, Yang Chen*,  Xinrong Zhang*, Michael Q. Zhang*. SEAM is a spatial single nuclear metabolomics method for dissecting tissue microenvironment. Nature Methods, 2021.18,1223-1232. link

4. Minglei Shi#*, Kaiqiang You#, Taoyu Chen, Chao Hou, Zhengyu Liang, Mingwei Liu, Jifeng Wang, Taotao Wei, Jun Qin, Yang Chen*, Michael Q Zhang*, Tingting Li*. Quantifying the phase separation property of chromatin-associated proteins under physiological conditions using an anti-1,6-hexanediol index. Genome Biology, 2021.22(1):229. link

5. Shuai Jiang, Hao Li, Hao Hong, Guifang Du, Xin Huang, Yu Sun, Junting Wang, Huan Tao, Kang Xu, Cheng Li, Yang Chen*, Hebing Chen*, Xiaochen Bo*. Spatial density of open chromatin: an effective metric for the functional characterization of topologically associated domains. Briefings in Bioinformatics. 2020 Sep 28;bbaa210. link

6. Kaiqiang You#, Qi Huang#,  Chunyu Yu#,  Boyan Shen,  Cristoffer Sevilla, MingleiShi,  HenningHermjakob*,  Yang Chen*,  Tingting Li*. PhaSepDB: a database of liquid–liquid phase separation related proteins. Nucleic Acids Research, 2020, Jan 8;48(D1):D354-D359. link

7. Fengling Chen#, Guipeng Li#, Michael Q Zhang, Yang Chen*. HiCDB: a sensitive and robust method for detecting contact domain boundaries. Nucleic Acids Research, 2018, 46, 11239-11250. link

8. Mohamed Nadhir Djekidel, Yang Chen*, Michael Q. Zhang*. FIND: difFerential chromatin INteractions Detection using a spatial Poisson process. Genome Research, 2018, 28:1-11. link

9. Yanjian Li#, Yi He#, Zhengyu Liang, Yang Wang, Fengling Chen, Mohamed Nadhir Djekidel, Guipeng Li, Xu Zhang, Shuqin Xiang, Zejun Wang, Juntao Gao, Michael Q. Zhang*, Yang Chen*. Alterations of specific chromatin conformation affect ATRA-induced leukemia cell differentiation. Cell Death & Disease, 2018, 9(2):200. link

10. Zhengyu Liang, Guipeng Li, Zejun Wang, Mohamed Nadhir Djekidel, Yanjian Li, Minping Qian, Michael Q. Zhang* and Yang Chen*. BL-Hi-C is an efficient and sensitive approach for capturing structural and regulatory chromatin interactions. Nature Communications, 2017, 8:1622. link

11. Jingyu Wang, Fengling Chen, Longwei Liu, Chunxiao Qi, Bingjie Wang, Xiaojun Yan, Chenyu Huang, Wei Hou, Michael Q. Zhang, Yang Chen*, Yanan Du*. Engineering EMT using 3D micro-scaffold to promote hepatic functions for drug hepatotoxicity evaluation. Biomaterials, 2016. 91:11-22. link

12. Mohamed Nadhir Djekidel, Zhengyu Liang, Qi Wang, Zhirui Hu, Guipeng Li, Yang Chen*, Michael Q. Zhang*. 3CPET: finding co-factor complexes from ChIA-PET data using a hierarchical Dirichlet process. Genome Biology, 2015. 16:288.

"教育经历： 1999.09-2002.06，就读于中山大学主修药学专业，辅修计算机专业，获学士学位。 2002.09-2005.06，就读于北京协和医学院, 免疫学专业，获硕士学位。 2005.09-2008.06，就读于北京协和医学院，生化与分子生物学专业，获博士学位。 工作经历： 2008.09-2011.07，清华大学自动化系控制科学与工程博士后站，助理研究员。 2011.08-2020.12，清华大学信息国家研究中心生物信息学研究部，助理研究员、副研究员。 2020.12-至今，中国医学科学院基础医学研究所，研究员，博士生导师。"