陳陽,1979年生,基礎醫學研究所院研究員,博士生導師。曾獲評2021年度中國生物信息學十大進展、2018年度中國生物信息學十大進展。1998-2002年在中山大學藥學專業、計算機輔修專業學習,獲學士學位。2002-2005年在中國協和醫科大學醫學生物學研究所免疫學專業學習,獲碩士學位。2005-2008年在中國協和醫科大學醫學生物學研究所生物化學與分子生物專業學習,獲博士學位。
     院校引進人才,2020年加入院校。曾于2008-2011年在清華大學自動化系控制科學與工程博士后站進行博士后研究。于2011-2019年在清華大學信息國家研究中心任職助理研究員、副研究員,主要從事基因組與生物信息學研究。
從事基因組學與生物信息學研究。承擔和參與科技部重點研發項目、國家基金委重大、重點、面上項目等十余項課題。其研究小組與合作者通過分子生物學、基因組學和計算機科學交叉,開發了業界廣泛使用的染色質構象捕獲技術BL-Hi-C;建立了SEE等一系列染色質空間結構與功能解析AI方法;發現了轉錄因子調控染色質結構的新規律;開發了國際上首個組織空間單細胞核代謝組技術SEAM。發表論文70余篇,代表性論文發表在?Nature Methods(2021)、Nature Communications(2022,2017)、Advanced Science(2025)、Genome Biology(2022,2015)?、Elife(2024)?等期刊。獲得專利7項,軟著4項。成果獲2022年中華醫學科技獎二等獎,入選2018年度、2021年度中國生物信息學十大進展。
1. Minghong Li#, Yurong Yang#, Rucheng Wu, Haiyan Gong, Zan Yuan, Jixin Wang, Erping Long, Xiaotong Zhang* and Yang Chen*. SEE: a method for predicting the dynamics of chromatin conformation based on single-cell gene expression. ADVANCED SCIENCE, 7 January 2025. (IF=14.3)
2. Haiyan Gong#, Yi Yang, Xiaotong Zhang*, Minghong Li, Sichen Zhang, Yang Chen*. CASPIAN: A Method to Identify Chromatin Topological Associated Domains based on Spatial Density Cluster. Computational and Structural Biotechnology Journal,2022,20:4816-4824. (IF=6.155)
3. 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*. MyoD is a 3D genome structure organizer for muscle cell identity. Nature Communications,2022,13:205. (IF=16.6)
4. 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(10):1223-1232. (IF=48)
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,2021,22(3):bbaa210. (IF=13.994)
6. 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,2021,22:229. (IF=17.906)
7. 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,2020,48(D1):D354-D359. (IF=10.727)
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. (IF=11.22)
9. 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. (IF=14.9)
10. Zhengyu Liang#, Guipeng Li, Zejun Wang, Mohamed Nadhir Djekidel, Yanjian Li, Min-Ping Qian, Michael Q. Zhang*, Yang Chen*. BL-Hi-C is an efficient and sensitive approach for capturing structural and regulatory chromatin interactions, Nature Communications, 2017, 8:1622. (IF=16.6)