PUBLICATION
Content-aware image restoration: pushing the limits of fluorescence microscopy
- Authors
- Weigert, M., Schmidt, U., Boothe, T., Müller, A., Dibrov, A., Jain, A., Wilhelm, B., Schmidt, D., Broaddus, C., Culley, S., Rocha-Martins, M., Segovia-Miranda, F., Norden, C., Henriques, R., Zerial, M., Solimena, M., Rink, J., Tomancak, P., Royer, L., Jug, F., Myers, E.W.
- ID
- ZDB-PUB-190514-5
- Date
- 2018
- Source
- Nature Methods 15: 1090-1097 (Journal)
- Registered Authors
- Norden, Caren, Royer, Loic
- Keywords
- none
- MeSH Terms
-
- Animals
- Drosophila melanogaster/metabolism
- Drosophila melanogaster/ultrastructure
- Fluorescent Dyes/chemistry*
- HeLa Cells
- Humans
- Image Processing, Computer-Assisted/methods*
- Liver/metabolism
- Liver/ultrastructure
- Microscopy, Fluorescence/methods*
- Photons
- Planarians/metabolism
- Planarians/ultrastructure
- Retina/metabolism
- Retina/ultrastructure
- Software*
- Tribolium/metabolism
- Tribolium/ultrastructure
- Zebrafish/metabolism
- PubMed
- 30478326 Full text @ Nat. Methods
Citation
Weigert, M., Schmidt, U., Boothe, T., Müller, A., Dibrov, A., Jain, A., Wilhelm, B., Schmidt, D., Broaddus, C., Culley, S., Rocha-Martins, M., Segovia-Miranda, F., Norden, C., Henriques, R., Zerial, M., Solimena, M., Rink, J., Tomancak, P., Royer, L., Jug, F., Myers, E.W. (2018) Content-aware image restoration: pushing the limits of fluorescence microscopy. Nature Methods. 15:1090-1097.
Abstract
Fluorescence microscopy is a key driver of discoveries in the life sciences, with observable phenomena being limited by the optics of the microscope, the chemistry of the fluorophores, and the maximum photon exposure tolerated by the sample. These limits necessitate trade-offs between imaging speed, spatial resolution, light exposure, and imaging depth. In this work we show how content-aware image restoration based on deep learning extends the range of biological phenomena observable by microscopy. We demonstrate on eight concrete examples how microscopy images can be restored even if 60-fold fewer photons are used during acquisition, how near isotropic resolution can be achieved with up to tenfold under-sampling along the axial direction, and how tubular and granular structures smaller than the diffraction limit can be resolved at 20-times-higher frame rates compared to state-of-the-art methods. All developed image restoration methods are freely available as open source software in Python, FIJI, and KNIME.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping