Fan Bai
Assistant Professor (PI)

  • E-mail:chinabaifan@hotmail.com
  • Tel:+86-10-6275.6164
    Office:Biodynamic Optical Imaging Center Annex Building Rm 161, Peking University, Beijing 100871
    Mailing Address:
    Website:
  • D. Phil,University of Oxford,2008,Biological Physics
    BS,Peking University,2003,Physics

    Professional Experiences
  • 2014-present, BIOPIC, Peking University, Principle Investigator

    20011.09- 2014,BIOPIC,Peking University, Co-PI

    2009-2011,Graduate School of Frontier Biosciences, Osaka University, JSPS Postdoctoral Researcher

    2008-2009,Physics Department, University of Oxford, Postdoctoral Researcher

    Research Interests
  • BIOPIC Bai Fan Lab combines cutting-edge single-molecule biophysics methods, single-molecule fluorescence imaging, single cell gene sequencing and systems biology theory to investigate problems at the frontier of modern biology. The main research theme is to study dynamic gene expression at single cell level, which includes single cell genome sequencing, transcriptome sequencing, dynamic measurement of proteome expression with high spatial and temporal resolution and systems biology analysis. Our current research mainly focuses on two research directions: 1) Bacterial motility, virulence, and the molecular mechanism of bacterial persistence and resistance to antibiotics. 2) Single cell human genome sequencing and single cell bacteria genome sequencing.
    Awards and Honors
  • 2014,  Luye Biomedical Award for Outstanding Young Scholar

    2012, Youth Qianren Program, Ministry of Science and Technology

    2007,University of Oxford WellcomeTrust VIP Research Scholar

    2004,China-Oxford Scholar

    2002,GRE General Test full mark、Subject Test full mark

    2002,First class prize, Challenge Cup, Peking University

    2001,CAS Scholarship for academic merit, Peking University

    1999,Contribution, The 7th ‘First Step to Nobel Prize’ International Competition in research projects in physics

    Selected Publication
  • 36. Pu Y, Ke Y and Bai F. Active efflux in dormant bacterial cells - New insights into antibiotic persistence. Drug Resist Updat. 2017;30:7-14.

    35. Li R, Li X, Xue R, Yang F, Wang S, Li Y, Shen D, Sun K, Chen K, Weng W, Bai F and Wang J. Early metastasis detected in patients with multifocal pulmonary ground-glass opacities (GGOs). Thorax. 2018;73:290-292.
    34. Li J, Liu K, Chen H, Li R, Drechsler M, Bai F, Huang J, Tang BZ and Yan Y. Functional Built-In Template Directed Siliceous Fluorescent Supramolecular Vesicles as Diagnostics. ACS Applied Materials & Interfaces. 2017;9:21706-21714.
    33. Chen XX, Zhong Q, Liu Y, Yan SM, Chen ZH, Jin SZ, Xia TL, Li RY, Zhou AJ, Su Z, Huang YH, Huang QT, Huang LY, Zhang X, Zhao YN, Yun JP, Wu QL, Lin DX, Bai F and Zeng MS. Genomic comparison of esophageal squamous cell carcinoma and its precursor lesions by multi-region whole-exome sequencing. Nat Commun. 2017;8:524.
    32. Fang Y, Su Z, Xie J, Xue R, Ma Q, Li Y, Zhao Y, Song Z, Lu X, Li H, Peng C, Bai F and Shen B. Genomic signatures of pancreatic adenosquamous carcinoma (PASC). J Pathol. 2017;243:155-159.
    31. Chen M, Zhao Z, Yang J, Peng K, Baker MA, Bai F and Lo CJ. Length-dependent flagellar growth of Vibrio alginolyticus revealed by real time fluorescent imaging. Elife. 2017;6.
    30. Li Y, Wu S and Bai F. Molecular characterization of circulating tumor cells-from bench to bedside. Semin Cell Dev Biol. 2018;75:88-97.
    29. Liu M, Liu Y, Di J, Su Z, Yang H, Jiang B, Wang Z, Zhuang M, Bai F and Su X. Multi-region and single-cell sequencing reveal variable genomic heterogeneity in rectal cancer. BMC Cancer. 2017;17:787.
    28. Du Y, Li R, Chen Z, Wang X, Xu T and Bai F. Mutagenic Factors and Complex Clonal Relationship of Multifocal Urothelial Cell Carcinoma. Eur Urol. 2017;71:841-843.
    27. Jin X, Guo X, Xu D, Zhao Y, Xia X and Bai F. Single-Cell Real-Time Visualization and Quantification of Perylene Bioaccumulation in Microorganisms. Environ Sci Technol. 2017;51:6211-6219.
    26. Gao Y, Ni X, Guo H, Su Z, Ba Y, Tong Z, Guo Z, Yao X, Chen X, Yin J, Yan Z, Guo L, Liu Y, Bai F, Xie XS and Zhang N. Single-cell sequencing deciphers a convergent evolution of copy number alterations from primary to circulating tumor cells. Genome Res. 2017;27:1312-1322.

    25. Ma Q, Sowa Y, Baker M*, Bai F* , Conformational spread in the flagellar motor switch in response to CheY-P regulation and motor structural alterations , Biophysical Journal 110 (2016), pp. 1411-1420 (*corresponding author)

    24. Pu Y#, Zhao Z#, Li Y#, Zou J, Ma Q, Zhao Y, Ke Y, Zhu Y, Chen H, Baker A.B. M, Ge H, Sun Y, Xie XS*, Bai F* , Enhanced efflux activity facilitates drug tolerance in dormant bacterial cells , Molecular Cell 62 (2016), pp. 284-294 (*corresponding author)

    23. Buda R#, Liu Y#, Yang J#, Hegde S#, Stevenson K, Bai F* and Pilizota T*, Dynamics of Escherichia coli`s passive response to a sudden decreases in external osmolarity, Proceedings of the National Academy of Sciences USA 113 (2016), pp. E5838-E5846 (*corresponding author)

    22. Du Y, Li R, Chen Z, Wang X, Xu T*, Bai F*, Mutagenic factors and complex clonal relationship of multifocal urothelial cell carcinoma, European Urology (2016), In press (*corresponding author)

    21. Pu Y#, Zhao Z#, Li Y#, Zou J, Ma Q, Zhao Y, Ke Y, Zhu Y, Chen H, Baker A.B. M, Ge H, Sun Y, Xie XS*, Bai F* “Enhanced efflux activity facilitates drug tolerance in dormant bacterial cells”. Molecular Cell (#equal contribution) (*corresponding author) 62 (2016), pp. 284-294.

    20. Xue R#, Li R#, Guo H#, Guo L#, Su Z, Ni X, Qi L, Zhang T, Li Q, Zhang Z, Xie XS, Bai F*, Zhang N* “Variable extent of intra-tumor heterogeneity revealed by genomic sequencing of multiple lesions in patients with hepatocellular carcinoma”. Gastroenterology (#equal contribution) (*corresponding author) 150 (2016), pp. 998-1008.

    19. Guo X*, Jin X, Lv X, Pu Y, Bai F* “Real time visualization of perylene nano-clusters (PNCs) in water and their partitioning to graphene surface and macrophage cells”. Environmental Science & Technology (*corresponding author) (2015), doi: 10.1021/acs.est.5b01880 

    18. Zhang J, Tian X, Zhang H, Teng Y, Li R, Bai F, Elankumaran S, Xing J. “TGF-β–induced epithelial-to-mesenchymal transition proceeds through stepwise activation of multiple feedback loops”. Science Signaling 7 (2014), ra91. 

    17. Bai F, Morimoto Y, Yoshimura S, Hara N, Kami-ike N, Namba K, Minamino T. “Assembly dynamics and the roles of FliI ATPase of the bacterial flagellar type III export apparatus”. Scientific Reports 4 (2014), Article number: 6528.

    16. Ni X#, Zhuo M#, Su Z#, Duan J#, Gao Y#, Wang Z#, Zong C#, Bai H, Chapman A, Zhao J, Xu L, An T, Ma Q, Wang Y, Wu M, Sun Y, Wang S, Li Z, Yang X, Yong J, Su X, Lu Y, Bai F*, Xie XS*, Wang J* “Reproducible copy number variation patterns among single circulating tumor cells of lung cancer patients” Proceedings of the National Academy of Sciences USA (#equal contribution)(*corresponding author) 110 (2013), pp21083-21088.

    15. Bai F, Che YS, Kami-ike N, Ma Q, Minamino T, Sowa Y, Namba K. “Populational heterogeneity vs. temporal fluctuation in Escherichia coli flagellar motor switching.” Biophysical Journal 105 (2013), pp 2123-2129.

    14. He Y, Tsutsui M, Scheicher RH, Bai F, Taniguchi M, Kawai T “Thermophoretic manipulation of DNA translocation through nanopores”. ACS Nano 7 (2013), pp 538–546.

    13. Lu S, Zong C, Fan W, Yang M, Li J, Chapman A, Zhu P, Hu X, Xu L, Yan L, Bai F, Qiao J, Tang F, Li R, Xie XS “Probing meiotic recombination and aneuploidy of single sperm cells by whole genome sequencing”. Science 338 (2012), pp. 1627-1630.

    12. Hu X, Yuan J, Shi Y, Lu J, Liu B, Li Z, Chen Z, Mu D, Zhang H, Li N, Yue Z, Bai F, Li H,  Fan W “pIRS: Profile based illumina pair-end reads simulator”. Bioinformatics 28 (2012), pp. 1533-1535

    11. Bai F, Wu Z, Jin J, Hochendoner P, Xing J. “Slow protein conformational change, allostery and network dynamics”, Protein-Protein Interactions-Computational and Experimental Tools, Dr. Weibo Cai (Ed.), ISBN: 978-953-51-0397-4, (2012), InTech.

    10. Ma Q, Nicolau D, Berry R, Maini P. Bai F* “Conformational spread in the flagellar motor switch: a model study”. PLoS Computational Biology (*corresponding author) (2012), doi:10.1371/journal.pcbi.1002523

    9. Morimoto Y, Ito M, Hiraoka K, Che YS, Bai F, Kami-ike N, Namba K, Minamino T. “Assembly and stoichiometry of FliF and FlhA in Salmonella flagellar basal body”. Molecular Microbiology 91 (2014), pp. 1214-1226.

    8. Bai F, Minamino T, Wu Z, Namba K, Xing J. “Coupling between switching regulation and torque generation in bacterial flagellar motor”. Physical Review Letters 108 (2012), pp. 178105.

    7. Mora T*, Bai F*, Che Y, Minamino T, Namba K, Wingreen N. “Non-genetic individuality in Escherichia coli motor switching”. Physical Biology (Communication) 8 (2011), pp. 024001 (*equal contribution)

    6. Little M, Steel B, Bai F, Sowa Y, Bilyard T, Mueller D, Berry R, Jones N. “Steps and bumps: precision extraction of discrete states of molecular machines using physically-based, high-throughput time series analysis”. Biophysical Journal 101 (2011), pp. 477-485.

    5. Bai F*, Branch R*, Nicolau D, Pilizota T, Steel, B, Maini P, Berry R. “Conformational spread as a mechanism for cooperativity in the bacterial flagellar switch”. Science 327 (2010), pp. 685-689. (*equal contribution)

    4. Bai F, Lo C, Berry R, Xing, J. “Model studies on the dynamics of bacterial flagellar motor”. Biophysical Journal 96 (2009), pp. 3154-3167. 

    3. Pilizota T, Bilyard T, Bai F, Futai M, Hosokawa H, Berry R. “A programmable optical angle clamp for rotary molecular motors.”Biophysical Journal 93 (2007), pp. 264-275. 

    2. Leake MC, Chandler JH, Wadhams GH, Bai F, Berry RM, Armitage JP., “Stoichiometry and turnover in single, functioning membrane protein complexes.” Nature 443 (2006), pp. 355-358. 

    1. Xing J, Bai F, Berry R, Oster G., “Torque-speed relationship of the bacterial flagellar motor.” Proceedings of the National Academy of Sciences USA 103 (2006), pp. 1260-1265.