Shawn Zheng

Department of Biochemistry & Biophysics
University of California, San Francisco
600 16th St., S126B
San Francisco CA

I am responsible for the development of electron tomography system. This system provides an automated means to view three dimensional biological structures from two-dimensional tilt series acquired on electron microscopes using CCD cameras. 

I obtained my doctoral degree in 1999 at the University of Utah. My dissertation is regarding the vortical structures generated by the interaction of trsnsverse jets in crossflows. Those structures hold extensive applications in many areas such as chemical mixing and microchannel cooling. An image based experimental technique was employed to view the vortical structures and to extract quantitative information of those structures.


"Electron counting and beam-induced motion correction enable near-atomic-resolution single-particle cryo-EM," Li, Xueming; Mooney, Paul; Zheng, Shawn; Booth, Christopher R.; Braunfeld, Michael B.; Gubbens, Sander; Agard, David A.; Cheng, Yifan, Nature Methods (2013), 10(6), 584-590. (html, pdf)

"A distributed multi-GPU system for high speed electron microscopic tomographic reconstruction," Zheng, Shawn Q.; Branlund, Eric; Kesthelyi, Bettina; Braunfeld, Michael B.; Cheng, Yifan; Sedat, John W.; Agard, David A., Ultramicroscopy (2011), 111(8), 1137-1143. (pdf)

Zheng, Shawn Q.; Sedat, J. W.; Agard, D. A.. "Automated data collection for electron microscopic tomography." Methods in Enzymology (2010), 481(Cryo-EM, Part A), 283-315. (pdf)

Zheng SQ, Matsuda A, Braunfeld MB, Sedat JW, Agard DA, "Dual-axis target mapping and automated sequential acquisition of dual-axis EM tomographic data," J Struct Biol. 2009 Jun 21. (html, pdf)

Suloway C, Shi J, Cheng A, Pulokas J, Carragher B, Potter CS, Zheng SQ, Agard DA, Jensen GJ, "Fully automated, sequential tilt-series acquisition with Leginon," J Struct Biol. (2009) Jul, 167(1): pp11-18. (html, pdf)

Zheng SQ, Kollman JM, Braunfeld MB, Sedat JW, Agard DA, "Automated acquisition of electron microscopic random conical tilt sets," J Struct Biol. 2007 Jan;157(1):148-55.161.(html or pdf).

Zheng SQ, Keszthelyi B, Branlund E, Lyle JM, Braunfeld MB, Sedat JW, and Agard DA,"UCSF tomography: An integrated software suite for real-time electron microscopic tomographic data collection, alignment, and reconstruction," J Struct Biol. 2006 Jun 23 (html or pdf).

Zheng, Q.S., Braunfeld, M.B., Sedat, J.W, and Agard, DA. "An improved strategy for automated electron microscopic tomography," J. Struct. Biol., (2004) 147(2):91-101 (html or pdf).