DL4MicEverywhere: deep learning for microscopy made flexible, shareable and reproducible

Iván Hidalgo-Cenalmor; Joanna W Pylvänäinen; Mariana G Ferreira; Craig T Russell; Alon Saguy; Ignacio Arganda-Carreras; Yoav Shechtman; AI4Life Horizon Europe Program Consortium; Guillaume Jacquemet; Ricardo Henriques; Estibaliz Gómez-de-Mariscal

doi:10.1038/s41592-024-02295-6

DL4MicEverywhere: deep learning for microscopy made flexible, shareable and reproducible

Nat Methods. 2024 Jun;21(6):925-927. doi: 10.1038/s41592-024-02295-6.

Authors

Iván Hidalgo-Cenalmor¹, Joanna W Pylvänäinen², Mariana G Ferreira¹, Craig T Russell³, Alon Saguy⁴, Ignacio Arganda-Carreras^{5

6

7

8}, Yoav Shechtman^{4

9}; AI4Life Horizon Europe Program Consortium; Guillaume Jacquemet^{10

11

12

13}, Ricardo Henriques^{14

15}, Estibaliz Gómez-de-Mariscal¹⁶

Collaborators

AI4Life Horizon Europe Program Consortium:
Arrate Muñoz-Barrutia, Beatriz Serrano-Solano, Caterina Fuster Barcelo, Constantin Pape, Emma Lundberg, Florian Jug, Joran Deschamps, Mariana G Ferreira, Matthew Hartley, Mehdi Seifi, Teresa Zulueta-Coarasa, Vera Galinova, Wei Ouyang

Affiliations

¹ Optical Cell Biology Group, Instituto Gulbenkian de Ciência, Oeiras, Portugal.
² Faculty of Science and Engineering, Cell Biology, Åbo Akademi University, Turku, Finland.
³ European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Cambridge, UK.
⁴ Department of Biomedical Engineering, Technion - Israel Institute of Technology, Haifa, Israel.
⁵ Department of Computer Science and Artificial Intelligence, University of the Basque Country (UPV/EHU), San Sebastián, Spain.
⁶ IKERBASQUE, Basque Foundation for Science, Bilbao, Spain.
⁷ Donostia International Physics Center (DIPC), San Sebastián, Spain.
⁸ Biofisika Institute (CSIC-UPV/EHU), Leioa, Spain.
⁹ Department of Mechanical Engineering, University of Texas at Austin, Austin, TX, USA.
¹⁰ Faculty of Science and Engineering, Cell Biology, Åbo Akademi University, Turku, Finland. guillaume.jacquemet@abo.fi.
¹¹ Turku Bioscience Centre, University of Turku and Åbo Akademi University, Turku, Finland. guillaume.jacquemet@abo.fi.
¹² Turku Bioimaging, University of Turku and Åbo Akademi University, Turku, Finland. guillaume.jacquemet@abo.fi.
¹³ InFLAMES Research Flagship Center, Åbo Akademi University, Turku, Finland. guillaume.jacquemet@abo.fi.
¹⁴ Optical Cell Biology Group, Instituto Gulbenkian de Ciência, Oeiras, Portugal. rjhenriques@igc.gulbenkian.pt.
¹⁵ UCL Laboratory for Molecular Cell Biology, University College London, London, UK. rjhenriques@igc.gulbenkian.pt.
¹⁶ Optical Cell Biology Group, Instituto Gulbenkian de Ciência, Oeiras, Portugal. egomez@igc.gulbenkian.pt.

PMID: 38760611
PMCID: PMC7616093 (available on 2024-12-01)
DOI: 10.1038/s41592-024-02295-6

No abstract available

Publication types

Letter

MeSH terms

Deep Learning*
Humans
Image Processing, Computer-Assisted / methods
Microscopy* / methods
Reproducibility of Results
Software

Publication types

MeSH terms

Grants and funding