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Content-aware image restoration: pushing the limits of fluorescence microscopy

Weigert, M; Schmidt, U; Boothe, T; Mueller, A; Dibrov, A; Jain, A; Wilhelm, B; ... Myers, EW; + view all (2018) Content-aware image restoration: pushing the limits of fluorescence microscopy. Nature Methods , 15 (12) pp. 1090-1097. 10.1038/s41592-018-0216-7. Green open access

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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.

Type: Article
Title: Content-aware image restoration: pushing the limits of fluorescence microscopy
Open access status: An open access version is available from UCL Discovery
DOI: 10.1038/s41592-018-0216-7
Publisher version: http://doi.org/10.1038/s41592-018-0216-7
Language: English
Additional information: This version is the author accepted manuscript. For information on re-use, please refer to the publisher’s terms and conditions.
UCL classification: UCL > Provost and Vice Provost Offices
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences
UCL > Provost and Vice Provost Offices > UCL BEAMS
UCL > Provost and Vice Provost Offices > UCL BEAMS > Faculty of Maths and Physical Sciences
UCL > Provost and Vice Provost Offices > UCL BEAMS > Faculty of Maths and Physical Sciences > Dept of Physics and Astronomy
URI: https://discovery.ucl.ac.uk/id/eprint/10065245
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