BioStudies and the Image Data Resource: Expanding Imaging Datasets, Linkage, Metadata and Value (Joint with EMBL-EBI) (Bioinformatics and Biological Resources Fund - BBR)

Search results

• 2025

  bia-binder: a web-native cloud compute service for the bioimage analysis community

  Russell, C. T., Burel, J. M., Athar, A., Li, S., Sarkans, U., Swedlow, J., Brazma, A., Hartley, M. (Lead / Corresponding author) & Uhlmann, V. (Lead / Corresponding author), Aug 2025, In: Bioinformatics. 41, 8, 5 p., btaf412.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Binder 100%
  • Cloud Computing 100%
  • Bioimaging 100%
  • Bioimage Analysis 100%
  • Compute Service 100%

  13 Downloads (Pure)

• 2023

  OME-Zarr: a cloud-optimized bioimaging file format with international community support

  Moore, J. (Lead / Corresponding author), Basurto-Lozada, D., Besson, S., Bogovic, J., Bragantini, J., Brown, E. M., Burel, J.-M., Casas Moreno, X., de Medeiros, G., Diel, E. E., Gault, D., Ghosh, S. S., Gold, I., Halchenko, Y. O., Hartley, M., Horsfall, D., Keller, M. S., Kittisopikul, M., Kovacs, G. & Küpcü Yoldaş, A. & 49 others, Kyoda, K., le Tournoulx de la Villegeorges, A., Li, T., Liberali, P., Lindner, D., Linkert, M., Lüthi, J., Maitin-Shepard, J., Manz, T., Marconato, L., McCormick, M., Lange, M., Mohamed, K., Moore, W., Norlin, N., Ouyang, W., Özdemir, B., Palla, G., Pape, C., Pelkmans, L., Pietzsch, T., Preibisch, S., Prete, M., Rzepka, N., Samee, S., Schaub, N., Sidky, H., Solak, A. C., Stirling, D. R., Striebel, J., Tischer, C., Toloudis, D., Virshup, I., Walczysko, P., Watson, A. M., Weisbart, E., Wong, F., Yamauchi, K. A., Bayraktar, O., Cimini, B. A., Gehlenborg, N., Haniffa, M., Hotaling, N., Onami, S., Royer, L. A., Saalfeld, S., Stegle, O., Theis, F. J. & Swedlow, J. R., Sept 2023, In: Histochemistry and Cell Biology. 160, p. 223–251 29 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • International Community 100%
  • Open Microscopy Environment 100%
  • Community Support 100%
  • File Format 100%
  • Bioimaging 100%

  55   Link opens in a new tab Citations (Scopus)

  191 Downloads (Pure)

• 2022

  The BioImage Archive - building a home for life-sciences microscopy data

  Hartley, M., Kleywegt, G. J., Patwardhan, A., Sarkans, U., Swedlow, J. R. & Brazma, A., 15 Jun 2022, In: Journal of Molecular Biology. 434, 11, 8 p., 167505.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Life Sciences 100%
  • Microscopy Data 100%
  • Bioimaging 100%
  • Collection Building 100%
  • Home for Life 100%

  92   Link opens in a new tab Citations (Scopus)

  356 Downloads (Pure)

• 2021

  OME-NGFF: a next-generation file format for expanding bioimaging data access strategies

  Moore, J., Allan, C., Besson, S., Burel, J.-M., Diel, E., Gault, D., Kozlowski, K., Lindner, D., Linkert, M., Manz, T., Moore, W., Pape, C., Tischer, C. & Swedlow, J. R. (Lead / Corresponding author), Dec 2021, In: Nature Methods. 18, p. 1496-1498 3 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • File Format 100%
  • Access Strategy 100%
  • Bioimaging 100%
  • Data Access 100%
  • Data Type 100%

  105   Link opens in a new tab Citations (Scopus)

  189 Downloads (Pure)

• 2018

  A call for public archives for biological image data

  Ellenberg, J. (Lead / Corresponding author), Swedlow, J. R. (Lead / Corresponding author), Barlow, M., Cook, C. E., Sarkans, U., Patwardhan, A., Brazma, A. (Lead / Corresponding author) & Birney, E. (Lead / Corresponding author), 30 Oct 2018, In: Nature Methods. 15, 11, p. 849-854 6 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Image Data 100%
  • Biological Image 100%
  • Bioimaging 100%
  • Public Archives 100%
  • Bioinformatics 100%

  85   Link opens in a new tab Citations (Scopus)

  236 Downloads (Pure)