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A Method for Generation of Synthetic 2D and 3D Cryo-EM Images

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Abstract

Cryo-electron microscopy (cryo-EM) is widely used in structural biology for resolving 3D models of particles with Angstrom resolution. The most popular techniques for such high-resolution model reconstruction are single-particle cryo-EM and cryo-electron tomography (cryo-ET). The cornerstone of both techniques is the registration of images: 2D images in cryo-EM and 3D images in cryo-ET. There are several registration methods for 2D and 3D cryo-EM images; however, it is hard to evaluate these methods due to the lack of ground truth for real data. Moreover, evaluation of image registration methods on real data is complicated by a high level of noise. In this paper, we propose image synthesis methods for generating realistic 2D single-particle cryo-EM images and 3D cryo-ET subtomogram images. The proposed algorithms model the artifacts typical of the real EM image acquisition pipeline: EM-specific noise, missing wedge effect, 2D projection, and contrast transfer function. We also present some examples of the 2D and 3D synthetic images generated.

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ACKNOWLEDGMENTS

This work was supported by the Russian Science Foundation, project no. 17-11-01279.

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Authors and Affiliations

  1. Laboratory of Mathematical Methods of Image Processing, Department of Computational Mathematics and Cybernetics, Moscow State University, Moscow, Russia

    N. A. Anoshina, T. B. Sagindykov & D. V. Sorokin

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  1. N. A. Anoshina
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  2. T. B. Sagindykov
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  3. D. V. Sorokin
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Correspondence to N. A. Anoshina, T. B. Sagindykov or D. V. Sorokin.

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Translated by Yu. Kornienko

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Anoshina, N.A., Sagindykov, T.B. & Sorokin, D.V. A Method for Generation of Synthetic 2D and 3D Cryo-EM Images. Program Comput Soft 44, 240–247 (2018). https://doi.org/10.1134/S0361768818040023

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