BioImage Archive
The BioImage Archive (BIA) is a research data repository hosting publicly accessible bioimaging datasets. It is hosted by the European Bioinformatics Institute, in the United Kingdom.[1][2] It was first announced on 2 July 2019. [3]
Its creation was proposed in 2018 to cater for the lack of a central public repository for microscopy images in the biosciences.[4] In 2019, it was created based on the BioStudies database and extended the EMBL-EBI resources for imaging, which at the time included only EMPIAR (the Electron Microscopy Public Image Archive).[2][5] BIA was also meant as a bridge between EMPIAR and the Image Data Resource, a public bioimaging database maintained by the Open Microscopy Environment consortium.[2][6] In 2026, BioImage Archive entered the list of ELIXIR Core Data Resources.[7][8]
As of 2026, BIA holds over 2,500 datasets.[9] Datasets cover a wide range of subjects and are identified by alphanumeric identifiers of the format "S-BIAD0000". For example, a study about development of the Japanese eel is deposited under the identifier S-BIAD3325.[10] Deposition on BioImage Archive is considered as a good practice for FAIR data in bioimaging.[11][12][13]
BioImage Archive provides application program interfaces usable by the general public and other open-source software utilities.[14]
See also
[edit]References
[edit]- ↑ Hartley, Matthew; Kleywegt, Gerard J.; Patwardhan, Ardan; Sarkans, Ugis; Swedlow, Jason R.; Brazma, Alvis (2022-06-15). "The BioImage Archive – Building a Home for Life-Sciences Microscopy Data". Journal of Molecular Biology. Computation Resources for Molecular Biology. 434 (11) 167505. doi:10.1016/j.jmb.2022.167505. ISSN 0022-2836. PMID 35189131.
- 1 2 3 Hartley, Matthew; Kleywegt, Gerard J.; Patwardhan, Ardan; Sarkans, Ugis; Swedlow, Jason R.; Brazma, Alvis (2022-02-11), "The BioImage Archive - building a home for life-sciences microscopy data", Journal of Molecular Biology, 434 (11), bioRxiv, doi:10.1101/2021.12.17.473169, PMID 35189131, retrieved 2026-08-25
- ↑ Reither, Sabine (2019-07-02). "The Bioimage Archive has been announced today by EMBL-EBI". German BioImaging. Retrieved 2026-08-25.
- ↑ Ellenberg, Jan; Swedlow, Jason R.; Barlow, Mary; Cook, Charles E.; Sarkans, Ugis; Patwardhan, Ardan; Brazma, Alvis; Birney, Ewan (November 2018). "A call for public archives for biological image data". Nature Methods. 15 (11): 849–854. doi:10.1038/s41592-018-0195-8. ISSN 1548-7105. PMC 6884425. PMID 30377375.
- ↑ Iudin, Andrii; Korir, Paul K; Somasundharam, Sriram; Weyand, Simone; Cattavitello, Cesare; Fonseca, Neli; Salih, Osman; Kleywegt, Gerard J; Patwardhan, Ardan (2023-01-06). "EMPIAR: the Electron Microscopy Public Image Archive". Nucleic Acids Research. 51 (D1): D1503–D1511. doi:10.1093/nar/gkac1062. ISSN 0305-1048. PMC 9825465. PMID 36440762.
- ↑ Williams, Eleanor; Moore, Josh; Li, Simon W.; Rustici, Gabriella; Tarkowska, Aleksandra; Chessel, Anatole; Leo, Simone; Antal, Bálint; Ferguson, Richard K.; Sarkans, Ugis; Brazma, Alvis; Carazo Salas, Rafael E.; Swedlow, Jason R. (August 2017). "Image Data Resource: a bioimage data integration and publication platform". Nature Methods. 14 (8): 775–781. doi:10.1038/nmeth.4326. ISSN 1548-7105. PMC 5536224. PMID 28775673.
- ↑ "ELIXIR Core Data Resources | ELIXIR". elixir-europe.org. Retrieved 2026-08-25.
- ↑ "BioImage Archive receives new Core Data Resource and Deposition Database status by ELIXIR". Euro-BioImaging. 2026-01-13. Retrieved 2026-08-25.
- ↑ "BioImage Archive | re3data.org". www.re3data.org. Retrieved 2026-08-25.
- ↑ "S-BIAD3325: Heterochrony of axis segmentation underlies extreme morphogenesis in the Japanese eel". beta.bioimagearchive.org. Retrieved 2026-08-25.
- ↑ FAIRsharing Team; Sarkans, Ugis; Hartley, Matthew (2018). "BioImage Archive | FAIRsharing". fairsharing.org. doi:10.25504/FAIRsharing.x38D2k. Retrieved 2026-08-25.
- ↑ Galinova, Vera; Seifi, Mehdi; Serrano Solano, Beatriz; Lidayová, Kristína; Dalle Nogare, Damian; Corbat, Agustín Andrés; Talks, Joshua; Giacomello, Edoardo; Gómez-de-Mariscal, Estibaliz (2026-07-22), AI4Life Open Calls and Public Challenges: why, how, and what we have learned, doi:10.64898/2026.07.21.739486, retrieved 2026-08-25
- ↑ Ambroset, Mélodie; Valades-Cruz, Cesar Augusto; Tonfack, Libert Brice; D'Antuono, Rocco; Fuster-Barceló, Caterina (2026). "Assessing the reproducibility of a bioimage analysis workflow characterising tissue flow in Drosophila". Journal of Microscopy. n/a (n/a) jmi.70125. doi:10.1111/jmi.70125. ISSN 1365-2818. PMID 42312811.
- ↑ Russell, Craig T; Burel, Jean-Marie; Athar, Awais; Li, Simon; Sarkans, Ugis; Swedlow, Jason; Brazma, Alvis; Hartley, Matthew; Uhlmann, Virginie (2025-08-01). "bia-binder: a web-native cloud compute service for the bioimage analysis community". Bioinformatics. 41 (8) btaf412. doi:10.1093/bioinformatics/btaf412. ISSN 1367-4811. PMC 12342736. PMID 40692175.