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Peer-reviewedCC BY 4.0Nucleic Acids Research

BioImage Archive: bringing bioimaging data together

  • Teresa Zulueta-Coarasa1
  • Aybuke Yoldas1
  • Liviu Anita1
  • Kolawole Babalola1
  • Karatug Bircan1
  • Cesare Cattavitello1
  • Damiano Clementel1
  • Miao Ma1
  • Tushar Mandloi1
  • Daniel Marks1
  • Christopher Rookyard1
  • Francois Sherwood1
4 more authors
  • Sriram Somasundharam1
  • Melina Velasquez1
  • Simone Weyand1
  • Matthew Hartley1
  1. 1European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus , Hinxton, Cambridge CB10 1SD ,
Open at sourcePDFDOICite

Abstract

The BioImage Archive (https://www.ebi.ac.uk/bioimage-archive) is EMBL-EBI’s flagship resource for life sciences image data. It serves as a deposition database for biological images across scales from near-atomic through to whole organisms, and across imaging modalities. The Archive’s mission is to support the reproducibility of quantitative results based on imaging, support methods development including modern deep-learning-based approaches, and allow large-scale reanalysis of image data. Across the Archive’s ecosystem, we provide access to over 11 PB of image data. Recent developments in underpinning infrastructure now allow interactive exploration, visualization, and streaming access to a subset of the Archive’s data using the new OME-Zarr file format, and will ultimately provide access to all of EMBL-EBI’s archived image data, including data from the Electron Microscopy Public Image Archive. Migration of all holdings and a unified submission system are in progress.

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Cite

BibTeXRIS
BibTeX
@article{zuluetacoarasa2026bioimage,
  title = {{BioImage Archive: bringing bioimaging data together}},
  author = {Teresa Zulueta-Coarasa and Aybuke Yoldas and Liviu Anita and Kolawole Babalola and Karatug Bircan and Cesare Cattavitello and Damiano Clementel and Miao Ma and Tushar Mandloi and Daniel Marks and Christopher Rookyard and Francois Sherwood and Sriram Somasundharam and Melina Velasquez and Simone Weyand and Matthew Hartley},
  journal = {Nucleic Acids Research},
  year = {2026},
  month = nov,
  doi = {10.1093/nar/gkag1108},
  url = {https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkag1108/9013049},
  note = {CC BY 4.0},
}
RIS
TY  - JOUR
TI  - BioImage Archive: bringing bioimaging data together
AU  - Teresa Zulueta-Coarasa
AU  - Aybuke Yoldas
AU  - Liviu Anita
AU  - Kolawole Babalola
AU  - Karatug Bircan
AU  - Cesare Cattavitello
AU  - Damiano Clementel
AU  - Miao Ma
AU  - Tushar Mandloi
AU  - Daniel Marks
AU  - Christopher Rookyard
AU  - Francois Sherwood
AU  - Sriram Somasundharam
AU  - Melina Velasquez
AU  - Simone Weyand
AU  - Matthew Hartley
PY  - 2026
DA  - 2026/11/05
JO  - Nucleic Acids Research
DO  - 10.1093/nar/gkag1108
UR  - https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkag1108/9013049
AB  - The BioImage Archive (https://www.ebi.ac.uk/bioimage-archive) is EMBL-EBI’s flagship resource for life sciences image data. It serves as a deposition database for biological images across scales from near-atomic through to whole organisms, and across imaging modalities. The Archive’s mission is to support the reproducibility of quantitative results based on imaging, support methods development including modern deep-learning-based approaches, and allow large-scale reanalysis of image data. Across the Archive’s ecosystem, we provide access to over 11 PB of image data. Recent developments in underpinning infrastructure now allow interactive exploration, visualization, and streaming access to a subset of the Archive’s data using the new OME-Zarr file format, and will ultimately provide access to all of EMBL-EBI’s archived image data, including data from the Electron Microscopy Public Image Archive. Migration of all holdings and a unified submission system are in progress.
SN  - 0305-1048
SN  - 1362-4962
ER  -