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Data-deposition protocols for correlative soft X-ray tomography and super-resolution structured illumination

Andrii Iudin1, Ugis Sarkans1, Mohamed A Koronfel2

  • 1European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.

STAR Protocols
|January 25, 2021
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Summary

This protocol details depositing correlated 3D cryo-imaging data from cryo-structured illumination microscopy and cryo-soft X-ray tomography. This ensures open access and validation of correlative microscopy data for further research and education.

Keywords:
BioinformaticsCell BiologyMicroscopyStructural Biology

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Area of Science:

  • Structural Biology
  • Microscopy
  • Data Science

Background:

  • Correlative 3D cryo-imaging combines multiple microscopy techniques.
  • Standardized data deposition is crucial for data accessibility and validation.
  • Existing methods for depositing correlative cryo-imaging data are insufficient.

Purpose of the Study:

  • To provide a robust protocol for depositing correlated 3D cryo-imaging data.
  • To ensure unhindered access to and independent validation of correlative light and X-ray microscopy data.
  • To facilitate further comparative studies, educational activities, and data mining.

Main Methods:

  • Utilizing cryo-structured illumination microscopy (cryo-SIM) and cryo-soft X-ray tomography (cryo-SXT).
  • Depositing data into the BioStudies and EMPIAR databases of the European Bioinformatics Institute.
  • Following a detailed protocol for data preparation and submission.

Main Results:

  • A clear, step-by-step protocol for data deposition is established.
  • The protocol enables the archiving of correlated 3D cryo-imaging datasets.
  • Ensures data is accessible for validation and reuse.

Conclusions:

  • The developed protocol addresses the need for robust data deposition in correlative cryo-imaging.
  • Facilitates data sharing and reuse in structural biology and microscopy research.
  • Supports the integrity and reproducibility of scientific findings.