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research article

Deep learning-enhanced light-field imaging with continuous validation

Wagner, Nils
•
Beuttenmueller, Fynn
•
Norlin, Nils
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May 1, 2021
Nature Methods

Visualizing dynamic processes over large, three-dimensional fields of view at high speed is essential for many applications in the life sciences. Light-field microscopy (LFM) has emerged as a tool for fast volumetric image acquisition, but its effective throughput and widespread use in biology has been hampered by a computationally demanding and artifact-prone image reconstruction process. Here, we present a framework for artificial intelligence-enhanced microscopy, integrating a hybrid light-field light-sheet microscope and deep learning-based volume reconstruction. In our approach, concomitantly acquired, high-resolution two-dimensional light-sheet images continuously serve as training data and validation for the convolutional neural network reconstructing the raw LFM data during extended volumetric time-lapse imaging experiments. Our network delivers high-quality three-dimensional reconstructions at video-rate throughput, which can be further refined based on the high-resolution light-sheet images. We demonstrate the capabilities of our approach by imaging medaka heart dynamics and zebrafish neural activity with volumetric imaging rates up to 100 Hz.

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Type
research article
DOI
10.1038/s41592-021-01136-0
Web of Science ID

WOS:000648344900034

Author(s)
Wagner, Nils
Beuttenmueller, Fynn
Norlin, Nils
Gierten, Jakob
Boffi, Juan Carlos
Wittbrodt, Joachim
Weigert, Martin  
Hufnagel, Lars
Prevedel, Robert
Kreshuk, Anna
Date Issued

2021-05-01

Published in
Nature Methods
Volume

18

Issue

5

Start page

557

End page

563

Subjects

Biochemical Research Methods

•

Biochemistry & Molecular Biology

•

neuronal-activity

•

microscopy

•

deconvolution

•

illumination

•

brain

Editorial or Peer reviewed

REVIEWED

Written at

EPFL

EPFL units
IBI-SV  
Available on Infoscience
June 5, 2021
Use this identifier to reference this record
https://infoscience.epfl.ch/handle/20.500.14299/178645
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