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Journal Article

Low-dose cryo electron ptychography via non-convex Bayesian optimization


Pelz,  Philipp
International Max Planck Research School for Ultrafast Imaging & Structural Dynamics (IMPRS-UFAST), Max Planck Institute for the Structure and Dynamics of Matter, Max Planck Society;
Max Planck Institute for the Structure and Dynamics of Matter, Center for Free Electron Laser Science, Luruper Chaussee 149, 22761, Hamburg, Germany;
Department of Physics, University of Hamburg, Hamburg, 22761, Germany;

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Pelz, P., Qiu, W. X., Bücker, R., Kassier, G., & Miller, R. J. D. (2017). Low-dose cryo electron ptychography via non-convex Bayesian optimization. Scientific Reports, 7: 9883. doi:10.1038/s41598-017-07488-y.

Cite as: https://hdl.handle.net/11858/00-001M-0000-002D-F364-3
Electron ptychography has seen a recent surge of interest for phase sensitive imaging at atomic or near-atomic resolution. However, applications are so far mainly limited to radiation-hard samples, because the required doses are too high for imaging biological samples at high resolution. We propose the use of non-convex Bayesian optimization to overcome this problem, and show via numerical simulations that the dose required for successful reconstruction can be reduced by two orders of magnitude compared to previous experiments. As an important application we suggest to use this method for imaging single biological macromolecules at cryogenic temperatures and demonstrate 2D single-particle reconstructions from simulated data with a resolution up to 5.4 Å at a dose of 20e-2. When averaging over only 30 low-dose datasets, a 2D resolution around 3.5 Å is possible for macromolecular complexes even below 100 kDa. With its independence from the microscope transfer function, direct recovery of phase contrast, and better scaling of signal-to-noise ratio, low-dose cryo electron ptychography may become a promising alternative to Zernike phase-contrast microscopy.