Full time faculty

Adjunct professor

Chair professor

Administration

Xueming Li

Xueming Li, Ph.D.

Principal Investigator

Tenure-track assistant professor

 

1998-2002   B.S.  University of Science and Technology Beijing

2002-2005   M.S.  University of Science and Technology Beijing

2005-2009   Ph.D.  Institute of Physics, CAS

2009-2013   Postdoc  University of California, San Francisco

2014-present  Principal Investigator  School of Life Sciences; Tsinghua-Peking Joint Center for Life Sciences; Advanced Innovation Center for Structural Biology, Tsinghua University

 

Main Research Fields:

We focus on the theoretical and methodological development of electron cryo-microscopy(CryoEM) and its application in structural biology to address important biological questions. We are particularly interested in developing and applying novel image processing technology to advance CryoEM for routine atomic-resolution structure analysis of biological macromolecules. In biology, we are working on the structural and functional mechanism of bacterial secretion system.

 

 

Publications:

  1. Zhaofeng Yan#, Meng Yin#, Dandan Xu, Yongqun Zhu*, Xueming Li*, Structural Insights into Secretin Translocation Channel in Type II Secretion System, Nature Structure & Molecular Biology, 2017, 24, 177-183.
  2. Minghui Li#, Xiaoyuan Zhou#, Shu Wang, Ye Gong, Deyuan Su, Huan Li, Xueming Li*, and Jian Yang*, Cryo-EM structure of a eukaryotic cyclic nucleotide-gated channel, Nature, 2017, 542, 60-65.
  3. Xiaoyu Liu#, Meijing Li#, Xian Xia#, Xueming Li*, and Zhucheng Chen*, Mechanism of chromatin remodeling from the Snf2-nucleosome structure, Nature, 2017, Accepted.
  4. Minghui Li, Wei K Zhang, Nicole M Benvin, Xiaoyuan Zhou,Deyuan Su, Huan Li, Shu Wang, Ioannis E Michailidis, Liang Tong, Xueming Li and Jian Yang, Structural basis of dual Ca2+/pH regulation of the endolysosomal TRPML1 channel, Nature Structure & Molecular Biology, 2017, Online published.
  5. Li Zhang#, Xiaojing Wang#, Fenghui Fan, Hong-Wei Wang, Jiawei Wang*, Xueming Li* and Sen-Fang Sui*, Cryo-EM structure of Nma111p, a unique HtrA protease composed of two protease domains and four PDZ domains, Cell Research, 2017, Online published
  6. Feng Wang#, Huichao Gong#, Gaochao Liu,# Meijing Li , Chuangye Yan, Tian Xia*, Xueming Li*,Jianyang Zeng*, DeepPicker: a Deep Learning Approach for Fully Automated Particle Picking in Cryo-EM, Journal of Structural Biology, 2016(195), 325-336
  7. Xueming Li*, Recent technical advancements enabled atomic resolution CryoEM, Chin. Phys. B, 25, 018710, 2016
  8. Guang Yang, Xiang Zhang, Zdravko Kochovski, Yufei Zhang, Bin Dai, Fuji Sakai, Lin Jiang, Yan Lu, Matthias Ballauff, Xueming Li, Cong Liu, Guosong Chen, and Ming Jiang, Precise and Reversible Protein-Microtubule-Like Structure with Helicity Driven by Dual Supramolecular Interactions, J. Am. Chem. Soc., 138 (6), 1932–1937, 2016
  9. Xueming Li, Shawn Zheng, David A. Agard, Yifan Cheng, Asynchronous data acquisition and on-the-fly analysis of dose fractionated cryoEM images by UCSFImage, Journal of Structural Biology, 192, 174-178, 2015
  10. Po-Lin Chiua#, Xueming Li#, Zongli Li, Brian Beckett,Axel F. Brilot, Nikolaus Grigorieff,David A. Agard, Yifan Cheng*, Thomas Walz*, Evaluation of super-resolution performance of the K2 electron-counting camera using 2D crystals of aquaporin-0, Journal of Structural Biology, 192, 163-173, 2015
  11. Linfeng Sun, Lingyun Zhao, Guanghui Yang, Chuangye Yan, Rui Zhou, Xiaoyuan Zhou, Tian Xie, Yanyu Zhao, Shenjie Wu, Xueming Li, and Yigong Shi*, Structural basis of human γ-secretase assembly, PNAS, 112, 6003-6008, 2015
  12. Qiang Zhou, Xuan Huang, Shan Sun, Xueming Li, Hong-Wei Wang* and Sen-Fang Sui*, Cryo-EM structure of SNAP-SNARE assembly in 20S particle, Cell Research, 25, 551-560, 2015
  13. Oren S. Rosenberg, Dustin Dovala, Xueming Li, Lynn Connolly, Anastasia Bendebury, Janet Finer-Moore, James Holton, Yifan Cheng, Robert M. Stroud, Jeffery S. Cox*, Substrates Control Multimerization and Activation of the Multi-Domain ATPase Motor of Type VII Secretion, Cell, 161, 501-512, 2015
  14. Frank DiMaio,Yifan Song, Xueming Li, Matthias J Brunner, Chunfu Xu, Vincent Conticello,    Edward Egelman, Thomas C Marlovits, Yifan Cheng and David Baker*, Atomic-accuracy models from 4.5-Å cryo-electron microscopy data with density-guided iterative local refinement, Nature Methods, 12, 361-365, 2015
  15. Ray Yu-Ruei Wang, Mikhail Kudryashev, Xueming Li, Edward H Egelman, Marek Basler, Yifan Cheng, David Baker and Frank DiMaio*, De novo protein structure determination from near-atomic-resolution cryo-EM maps, Nature Methods, 12, 335-338, 2015
  16. Vahid Abrishami, Javier Vargas, Xueming Li, Yifan Cheng, Roberto Marabini, Carlos Oscar Sanchez Sorzanoa, Jose Maria Carazo*, Alignment of direct detection device micrographs using a robust Optical Flow approach, Journal of Structural Biology, 189, 163-176, 2015
  17. Peter S. Shen, Joseph Park, Yidan Qin, Xueming Li, Krishna Parsawar, Matthew H. Larson, James Cox, Yifan Cheng, Alan M. Lambowitz, Jonathan S. Weissman, Onn Brandman, Adam Frost*, Rqc2p and 60S ribosomal subunits mediate mRNA-independent elongation of nascent chains, Science, 347, 75-78, 2015
  18. Zhen Yan, Xiao-chen Bai, Chuangye Yan, Jianping Wu, Zhangqiang Li, Tian Xie, Wei Peng, Chang-cheng Yin, Xueming Li, Sjors H. W. Scheres*, Yigong Shi* and Nieng Yan*, Structure of the rabbit ryanodine receptor RyR1 at near-atomic resolution, Nature, 517, 50-55, 2015
  19. Yina Wang, Joerg Schnitzbauer, Zhe Hu, Xueming Li, Yifan Cheng, Zhen-Li Huang, and Bo Huang*, Localization events-based sample drift correction for localization microscopy with redundant cross-correlation algorithm, Opt Express, 22, 15982-15991, 2014
  20. Pawel A. Penczek*, Jia Fang, Xueming Li, Yifan Cheng, Justus Loerke, Christian M.T. Spahn,CTER-rapid estimation of CTF parameters with error assessment, Ultramicroscopy, 140, 9-19, 2014
  21. Soyeon Park#, Xueming Li#, Homin Kim#, Chingakham Ranjit Singh, Geng Tian, Martin A. Hoyt, Scott Lovell, Kevin P. Battaile, Michal Zolkiewski, Philip Coffino, Jeroen Roelofs*, Yifan Cheng*, and Daniel Finley*, Reconfiguration of the proteasome during chaperone-mediated assembly, Nature, 497, 512-516, 2013. (*co-first author)
  22. Xueming Li, Paul Mooney, Shawn Zheng, Chris Booth, Michael B. Braunfeld, Sander Gubbens, David A. Agard* and Yifan Cheng*, Electron counting and beam-induced motion correction enable near atomic resolution single particle cryoEM, Nature Methods, 10, 584-590, 2013.
    1. ¶ Featured in Nature Methods News and Views: Robert M. Glaeser (2013) Stroboscopic imaging of macromolecular complexes. Nature Methods 10, 475-476.
    2. ¶ Featured in Nature Methods: Method of the Year 2013.
    3. ¶ Featured in Science: Martin T.J. Smith and John L. Rubinstein (2014), Beyond blob-ology: Advanced cryo-electron microscopy yields high-resolution structures of proteins, Science 345, 617
  23. Xueming Li, Shawn Zheng, Kiyoshi Egami,David A. Agard*, Yifan Cheng*, Influence of electron dose rate on electron counting images recorded with the K2 camera, J Struct. Biol., 184, 251-260, 2013.
  24. Patricia Grob, Derek Bean, Dieter Typke, Xueming Li, Eva Nogales, and Robert M. Glaeser*, Ranking TEM cameras by their response to electron shot noise, Ultramicroscopy, 133, 1-7, 2013
  25. Shenping Wu, Agustin Avila-Sakar, JungMin Kim, David S. Booth, Charles H. Greenberg, Andrea Rossi, Maofu Liao, Xueming Li, Akram Alian, Sarah L. Griner, Narinobu Juge, Yadong Yu, Claudia M. Mergel, Javier Chaparro-Riggers, Pavel Strop, Robert Tampé, Robert H. Edwards, Robert M. Stroud, Charles S. Craik, Yifan Cheng*, Fabs enable single particle cryoEM studies of small proteins, Structure, 20, 582-592, 2012.
  26. Agustin Avila-Sakar, Xueming Li, Shawn Q. Zheng, and Yifan. Cheng*, Recording high-resolution images of two-dimensional crystals of membrane proteins, Chapter 8, Electron crystallography of soluble and membrane proteins, Methods in Molecular Biology, 955, 129- 152, 2012.
  27. Xueming Li, Nikolaus Grigorieff, Yifan. Cheng*, GPU-enabled FREALIGN: accelerating single particle 3D reconstruction and refinement in Fourier space on graphics processors, J Struct Biol., 172, 407-12, 2010

In Physics and material science

  1. Xueming Li, Fanghua Li*, Huiqian Luo, Lei Fang, Hai-hu Wen, Transmission electron microscopy study of one-dimensional incommensurate structural modulation in superconducting oxides Bi2+xSr2-xCuO6+δ (0.1≤x≤0.4), Superconductor Science and Technology, 22, 065003, 2009
  2. Xueming Li, Fanghua Li, Haifu Fan*, A revised version of the program VEC, Chinese Physics B, 18(6), 2459-2463, 2009
  3. Binghui Ge, Yumei Wang, Xueming Li, Fanghua Li , H.L. Song, H.J. Zhang*, A study of an incommensurately modulated structure in Ca0.28Ba0.72Nb2O6 by electron microscopy, Philosophical Magazine Letters, 88, 213 – 217, 2008
  4. Binghui Ge, Fanghua Li*, Xueming Li, Yumei Wang, Zhenhua Chi, Changqing Jin, Study of superstructure II in multiferroic BiMnO3, Chinese Physics B, 17, 3163-3169, 2008
  5. Xueming Li, Fanghua Li, Yumei Wang, Huiqian Luo, Haihu Wen, The investigation of incommensurate modulation waves in Bi2.1Sr1.9CuO6+δ by image deconvolution, Proceedings of International 12th Beijing Conference and Exhibition on Instrumental Analysis, 2007, Beijing, China
  6. Xueming Li, Rong Wang, Fanghua Li, Superstructure of La0.4Ca2.6Mn2O7 Studied with Maximum Entropy Image Deconvolution, J. Chin. Electr. Microsc. Soc., 25, 22-23, 2006
  7. Xueming Li, Si-ze Yang*, Xingfang Wu, Preparation of Silicon Carbide Nitride Films on Si Substrate by Pulsed High-Energy Density Plasma, Journal of University of Science and Technology Beijing, 13(3), 272-276, 2006

Contact£º

Tel£º62782271

E-mail: lixueming@mail.tsinghua.edu.cn  



Tsinghua University,Beijing,China,100084
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