Published June 20, 2023 | Version v1
Journal article Open

Machine learning for classifying narrow-beam electron diffraction data

  • 1. Biozentrum, University of Basel, Basel, Basel-Stadt, Switzerland
  • 2. Biozentrum, University of Basel, Basel, Basel-Stadt, Switzerland, Laboratory of Nanoscale Biology, Paul Scherrer Institute, Villigen, Switzerland
  • 3. Laboratory of Nanoscale Biology, Paul Scherrer Institute, Villigen, Switzerland

Description

As an alternative approach to X-ray crystallography and single-particle cryo-electron microscopy, single-molecule electron diffraction has a better signal-to-noise ratio and the potential to increase the resolution of protein models. This technology requires collection of numerous diffraction patterns, which can lead to congestion of data collection pipelines. However, only a minority of the diffraction data are useful for structure determination because the chances of hitting a protein of interest with a narrow electron beam may be small. This necessitates novel concepts for quick and accurate data selection. For this purpose, a set of machine learning algorithms for diffraction data classification has been implemented and tested. The proposed pre-processing and analysis workflow efficiently distinguished between amorphous ice and carbon support, providing proof of the principle of machine learning-based identification of positions of interest. While limited in its current context, this approach exploits inherent characteristics of narrow electron beam diffraction patterns and can be extended for protein data classification and feature extraction.

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Funding

NanED – Electron Nanocrystallography 956099
European Commission
Single molecule electron diffraction 205320_201012
Swiss National Science Foundation