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基础医学系

张奇伟

履历

    2009/7-至今,清华大学,清华信息科学与技术国家实验室,教授
                           
    清华信息科学与技术国家实验室合成与系统生物学中心(主任)
                           教育部生物信息重点实验室
                           信息学院自动化系  博士生导师 
                           医学院基础医学系  博士生导师

    2010/7-至今,美国德克萨斯州立大学达拉斯分校,系统生物学中心,Full Professor

    2002-2010 美国冷泉港实验室,Full Professor

    1999-2001 美国冷泉港实验室,Associate Professor

    1996-1998 美国冷泉港实验室,Assistant Staff

    1991-1996 美国冷泉港实验室,Research Fellow

    1987-1991 美国,纽约大学,Courant Institute,博士后,合作导师:Jerry Percus

    1981-1987 美国Rutgers University,统计物理,博士,导师:Joel L. Lebowitz

    1977-1981 中国科学技术大学学士


研究领域与方向

张奇伟实验室的研究方向主要包含计算生物学,生物信息学,合成生物学与系统生物学,特别是利用高通量组学技术和高性能计算机模拟,研究细胞发育、分化、凋亡的基因调控和代谢网络,及其在癌症治疗、生物能源开发、和环境保护等领域中的应用。

学术荣誉与奖励

关键词

代表性论文

1.     Guipeng Li, Yang Chen, Michael P. Snyder* and Michael Q. Zhang*, ChIA-PET2: a versatile and flexible pipeline for ChIA-PET data analysis. Nucleic Acids Research, 2017, 45(1):e4.

2.     Yang Yang#, Lei Chen#, Jin Gu#, Hanshuo Zhang#, Jiapei Yuan, Qiuyu Lian, …, Hongyang Wang*, Michael Q. Zhang* and Zhi John Lu*, Recurrently deregulated lncRNAs associated with HCC tumorigenesis and metastasis revealed by genomic, epigenomic, and transcriptomic profiling in paired primary tumor and PVTT samples. Nature Communications, 2017-2-13, 8: 14421.

3.     Maoxiang Shi, Juntao Gao*, Michael Q. Zhang*, Web3DMol: interactive protein structure visualization based on WebGL. Nucleic Acids Research, 2017, 45: W523-W527.

4.     Yanxiang Ni*, Bo Cao, Tszshan Ma, Gang Niu, Yingdong Huo, Jiandong Huang, Danni Chen, Yi Liu, Bin Yu, Michael Q Zhang*, Hanben Niu*, Super-resolution imaging of a 2.5 kb nonrepetitive DNA in situ in the nuclear genome using molecular beacon probes. eLife, 2017, 6:e21660.

5.     Fei Xavier Chen, Peng Xie, Clayton K. Collings, Kaixiang Cao, Yuki Aoi, Stacy A.Marshall, Emily J. Rendleman, Michal Ugarenko, Patrick A. Ozark, Anda Zhang, Ramin Shiekhattar, Edwin R. Smith, Michael Q. Zhang, and Ali Shilatifard*, PAF1 Regulation of Promoter-Proximal Pause-Release via Enhancer Activation. Science, 2017, 357(6357):1294-1298. PMID: 28860207

6.     Zhenhai Du, Hui Zheng, Bo Huang, Rui Ma, Jingyi Wu, Xianglin Zhang, Jing He, Yunlong Xiang, Qiujun Wang, Yuanyuan Li, Jing Ma, Xu Zhang, Ke Zhang, Yang Wang, Michael Q. Zhang, Juntao Gao, Jesse R. Dixon, Xiaowo Wang, Jianyang Zeng & Wei Xie*. Allelic reprogramming of 3D chromatin architecture during early mammalian development. Nature, 2017, 547:232-235. PMID: 28703188.

7.     Xin Liu#, Yuannyu Zhang#, Yong Chen#, Mushan Li#, Feng Zhou#*, Kailong Li, Hui Cao, Min Ni, Yuxuan Liu, Zhimin Gu, Kathryn E. Dickerson, Shiqi Xie, Gary C. Hon, Zhenyu Xuan, Michael Q. Zhang, Zhen Shao, Jian Xu*. In Situ Capture of Chromatin Interactions by Biotinylated dCas9. Cell, 2017, 170:1028-1043. PMID: 28841410.

8.     Xiangyu Li, Weizheng Chen, Yang Chen, Xuegong Zhang, Jin Gu* and MichaelQ. Zhang*, Network embedding-based representation learning for single cell RNA-seq data, Nucleic Acids Research, 2017, 45(19): e166.

9.     Zhengyu Liang, Guipeng Li, Zejun Wang, Mohamed Nadhir Djekidel, Yanjian Li, Min-Ping 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.

10.   Yi Zhao#, Hui Li#, Shuangsang Fang, Yue Kang, Wei wu, Yajing Hao, Ziyang Li, Dechao Bu, Ninghui Sun, Michael Q. Zhang* and Runsheng Chen*, NONCODE 2016: an informative and valuable data source of long non-coding RNAs. Nucleic Acids Res, 2016. 44(D1):D203-8. PMID: 26586799, PMCID: PMC4702886.

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.

12.   Xiaopeng Ma#, Ge Zhan#, Monica C. Sleumer, Siyu Chen, Weihong Liu, Michael Q. Zhang and Xiao Liu*, Analysis of C. elegans muscle transcriptome using trans-splicing-based RNA tagging (SRT). Nucleic Acids Res, 2016, 44:e156. Doi: 10.1093lnarlgkw734. PMID: 27557708.

13.   Karl Zhanghao#, Long Chen#, Xusan Yang, Miaoyan Wang, Zhenli Jing, Hongbin Han, Michael Q. Zhang, Dayong Jin*, Juntao Gao* and Peng Xi*, Super-resolution Dipole Orientation Mapping via Polarization Demodulation. Light: Science & Applications, 2016, 5:e16166. Doi: 10.1038/lsa.2016.166.

14.   Roadmap Epigenomics Consortium, Anshul Kundaje#, Wouter Meuleman#, Jason Ernst#, Misha Bilenky#,..., Michael Q. Zhang,..., Manolis Kellis*, Integrative analysis of 111 reference human epigenomes. Nature, 2015. 518:317-330.


联系方式

Email: michaelzhang at tsinghua.edu.cn

Phone: 010-62772872

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