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Published April 14, 2021 | Version v2.00
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WU-BIMAC/NBOMicroscopyMetadataSpecs: 4DN-BINA-OME (NBO) Microscopy Metadata Specifications

Creators

  • 1. Program in Molecular Medicine, UMass Medical School, Worcester MA 01605, USA
  • 2. Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, VA 20147, USA
  • 3. Institute for Applied Life Sciences, University of Massachusetts, Amherst, MA 01003, USA
  • 4. Allen Institute for Cell Science, Seattle, WA 98109, USA
  • 5. The Rockefeller University, New York, NY 10065, USA
  • 6. Instituto de Biotecnologıa, Universidad Nacional Autonoma de Mexico, Cuernavaca, Morelos, 62210, México
  • 7. Quantitative Imaging Systems LLC, Portland, OR 97209, USA
  • 8. National Institute of Standards and Technology, Gaithersburg, MD 20899, USA
  • 9. Advanced BioImaging Facility (ABIF), McGill University, Montreal, Quebec, H3G 0B1, Canada
  • 10. Department of Physics and Astronomy, University of Exeter, Exeter, EX4 4QL, UK
  • 11. Biocampus, CNRS UMS 3426, Montpellier 34293, France
  • 12. MIA Cellavie Inc., Montreal, Quebec, H1K 4G6, Canada
  • 13. Bioimaging Unit, Newcastle University, Newcastle upon Tyne, NE2 4HH, UK
  • 14. Life Imaging Center and BIOSS Centre for Biological Signaling Studies, Albert-Ludwigs-University Freiburg, Freiburg, 79104, Germany
  • 15. RNA Therapeutics Institute, UMass Medical School, Worcester MA 01605, USA

Description

This is v2.00 of the 4DN-BINA-OME (NBO) Microscopy Metadata Specifications. These specifications are the results of a proposal put forth by the 4D Nucleome (4DN) Imaging Standards Working Group and by the Bioimaging North America (BINA) Quality Control and Data Management Working Group (QC-DM-WG) for a suite of tiered Microscopy Metadata Specifications that extend the October 2016 version of the OME Data Model schema.

This version supersedes and replaces v1.07 of the guidelines, which were called Microscopy Metadata 4DN Guidelines.

The next version of the NBO Microscopy Metadata Specifications will be released as part of a community outreach effort conducted in collaboration with the Quality Assessment and Reproducibility for Light Microscopy (QUAREP-LiMi) initiative.

Everyone is encouraged to contribute to the next release v02-01 draft of the specifications.

Click here for a shortcut to the model directory. To create an issue, click on Issues, the "New Issue" button, and select whether you are submitting a proposed new feature/element or want to propose a change to elements of the current proposal.

Notes

Additional support: -- NSF grant #1917206 to D.G.; -- Chan Zuckerberg Initiative grant #2019-198155 (5022) awarded to C.S.D.C. as part of the Imaging Scientist Program.

Files

WU-BIMAC/NBOMicroscopyMetadataSpecs-v2.00.zip

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Additional details

Related works

Is supplement to
https://github.com/WU-BIMAC/NBOMicroscopyMetadataSpecs/tree/v2.00 (URL)

Funding

4D Nucleome Network Data Coordination and Integration Center 5U01CA200059-03
National Institutes of Health
Visualizing local and global chromatin architecture, and gene expression in the individual cell by structural (SUSHI) and temporal (3D-SMRT) single molecule imaging 1U01EB021238-01
National Institutes of Health

References

  • Huisman, M., Hammer, M., Rigano, A., Farzam, F., Gopinathan, R., Smith, C., Grunwald, D., & Strambio-De-Castillia, C. (2019). Minimum Information guidelines for fluorescence microscopy: increasing the value, quality, and fidelity of image data. In arXiv [q-bio.QM]. arXiv. http://arxiv.org/abs/1910.11370