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REMBI: Recommended Metadata for Biological Images—enabling reuse of microscopy data in biology

Journal Article · · Nature Methods
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  1. European Molecular Biology Lab. (EMBL), Hinxton (United Kingdom)
  2. Stanford Univ., CA (United States); SLAC National Accelerator Lab., Menlo Park, CA (United States)
  3. Francis Crick Institute, London (United Kingdom)
  4. SPT Labtech Ltd, Melbourn (United Kingdom)
  5. European Molecular Biology Lab. (EMBL), Heidelberg (Germany)
  6. Univ. of Massachusetts Medical School, Worcester, MA (United States)
  7. Instituto Gulbenkian de Ciencia Oeiras, Lisboa (Portugal)
  8. European Molecular Biology Lab. (EMBL), Hinxton (United Kingdom); Kymab Ltd., Cambridge (United Kingdom)
  9. National Institutes of Health (NIH), Bethesda, MD (United States); Frederick National Lab. for Cancer Research, Frederick, MD (United States)
  10. Univ. of London (United Kingdom)
  11. Univ. of Dundee (United Kingdom)
  12. Univ. of Bristol (United Kingdom)
  13. Wellcome Sanger Institute, Hinxton (United Kingdom)
  14. European Molecular Biology Lab. (EMBL), Hinxton (United Kingdom); Ebury UK, London (United Kingdom)
  15. Katholieke Univ. Leuven (Belgium)
  16. Carl Zeiss Microscopy GmbH, Jena (Germany)
  17. Science and Technology Facilities Council (STFC), Harwell (United Kingdom). Diamond Light Source, Ltd.; European Molecular Biology Lab. (EMBL), Hamburg (Germany)
  18. Univ. de Nantes (France)
  19. Janssen Pharmaceutical Companies of Johnson & Johnson, Beerse (Belgium)
  20. Science and Technology Facilities Council (STFC), Harwell (United Kingdom). Diamond Light Source, Ltd.
  21. Univ. of Turku (Finland); Åbo Akademi Univ., Turku (Finland); Euro-BioImaging ERIC, Turku (Finland)
  22. EMBO, Heidelberg (Germany)
  23. GlaxoSmithKline R&D, Stevenage (United Kingdom)
  24. Inst. of Physical and Chemical Research (RIKEN), Kobe (Japan)
  25. King's College, London (United Kingdom)
  26. National Physical Lab., Teddington (United Kingdom)
  27. Chan Zuckerberg Initiative, Redwood City, CA (United States)
  28. European Molecular Biology Lab. (EMBL), Barcelona (Spain)
  29. Univ. of Konstanz (Germany)
  30. Leiden Univ. Medical Center (Netherlands)
  31. Science and Technology Facilities Council (STFC), Harwell (United Kingdom). Diamond Light Source, Ltd.; Univ. of Oxford (United Kingdom)
+ Show Author Affiliations
Bioimaging data have significant potential for reuse, but unlocking this potential requires systematic archiving of data and metadata in public databases. Here, we propose draft metadata guidelines to begin addressing the needs of diverse communities within light and electron microscopy. We hope this publication and the proposed Recommended Metadata for Biological Images (REMBI) will stimulate discussions about their implementation and future extension.
Research Organization:
SLAC National Accelerator Laboratory (SLAC), Menlo Park, CA (United States)
Sponsoring Organization:
USDOE Office of Science (SC), Basic Energy Sciences (BES); National Science Foundation (NSF); United Kingdom Research and Innovation (UKRI); Wellcome Trust; Biotechnology and Biological Sciences Research Council (BBSRC); National Institutes of Health (NIH); Cancer Research UK; UK Medical Research Council; European Commission (EC)
Grant/Contract Number:
AC02-76SF00515
OSTI ID:
1786346
Journal Information:
Nature Methods, Journal Name: Nature Methods Vol. 18; ISSN 1548-7091
Publisher:
Nature Publishing GroupCopyright Statement
Country of Publication:
United States
Language:
English

References (23)

Introduction to the DICOM standard journal September 2001
Unravelling biological macromolecules with cryo-electron microscopy journal September 2016
Repeatability of published microarray gene expression analyses journal January 2009
Minimum information about a microarray experiment (MIAME)—toward standards for microarray data journal December 2001
EMPIAR: a public archive for raw electron microscopy image data journal March 2016
Image Data Resource: a bioimage data integration and publication platform journal June 2017
Reuse of public genome-wide gene expression data journal December 2012
Resolving individual atoms of protein complex by cryo-electron microscopy journal November 2020
Super-resolution microscopy demystified journal January 2019
Single-particle cryo-EM at atomic resolution journal October 2020
Atomic-resolution protein structure determination by cryo-EM journal October 2020
A call for public archives for biological image data journal October 2018
A global view of standards for open image data formats and repositories journal May 2021
QUAREP-LiMi: a community endeavor to advance quality assessment and reproducibility in light microscopy journal May 2021
The FAIR Guiding Principles for scientific data management and stewardship journal March 2016
Metadata matters: access to image data in the real world journal May 2010
The cell: an image library-CCDB: a curated repository of microscopy data journal November 2012
EMDataBank unified data resource for 3DEM journal November 2015
Protein Data Bank: the single global archive for 3D macromolecular structure data journal October 2018
Optical Sectioning Deep Inside Live Embryos by Selective Plane Illumination Microscopy journal August 2004
2.2 A resolution cryo-EM structure of  -galactosidase in complex with a cell-permeant inhibitor journal May 2015
Isotropic Light-Sheet Microscopy and Automated Cell Lineage Analyses to Catalogue Caenorhabditis elegans Embryogenesis with Subcellular Resolution journal January 2019
Imaging methods are vastly underreported in biomedical research journal August 2020

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59 BASIC BIOLOGICAL SCIENCES
96 KNOWLEDGE MANAGEMENT AND PRESERVATION