Label-free prediction of three-dimensional fluorescence images from transmitted-light microscopy
Open accessPublished version of a preprint
Abstract
Understanding cells as integrated systems is central to modern biology. Although fluorescence microscopy can resolve subcellular structure in living cells, it is expensive, is slow, and can damage cells. We present a label-free method for predicting three-dimensional fluorescence directly from transmitted-light images and demonstrate that it can be used to generate multi-structure, integrated images. The method can also predict immunofluorescence (IF) from electron micrograph (EM) inputs, extending the potential applications.
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References 21 · Cited by 495
- Authors
- Ounkomol, C., Seshamani, S., Maleckar, M. M., Collman, F., & Johnson, G. R.
- Affiliations
- Allen Institute for Cell Science (US)
- Allen Institute for Brain Science (US)
- Corresponding author
- Johnson, Gregory R.
- Venue
- Nature Methods
- Published
- 2018-09-17
- Volume
- 15
- Issue
- 11
- Pages
- 917-920
- ISSN
- 1548-7091 (ISSN-L)
- 1548-7105
- PMC
- PMC6212323
- OpenAlex
- W2949493305
- Cited by
- 495
- References
- 21
- Citations by year
- 2026: 42 · 2025: 60 · 2024: 54 · 2023: 63 · 2022: 78 · 2021: 80 · 2020: 71 · 2019: 34 · 2018: 12 · 2017: 1
- FWCI
- 25.72
- Type
- journal article
- Language
- en
- Open access
- green
- doi.org
- Licence
- cc-by-nc
- www.springer.com/tdm (tdm)
- Locations
- Nature Methods (publishedVersion)
- bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- Funders
- National Institute of Mental Health (R01MH104227)
- National Institute of Neurological Disorders and Stroke (R01NS092474)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Biophysics › Cell Image Analysis Techniques
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Biophysics › Advanced Fluorescence Microscopy Techniques
- Physical Sciences › Physics and Astronomy › Atomic and Molecular Physics, and Optics › Digital Holography and Microscopy
- Keywords
- transmitted light microscopy, 3D fluorescence imaging, convolutional neural networks
- MeSH terms
- Cells, Cultured, Fibrosarcoma, Fluorescent Antibody Technique, Humans, Image Processing, Computer-Assisted, Microscopy, Electron, Microscopy, Fluorescence, Imaging, Three-Dimensional, Cellular Structures, Induced Pluripotent Stem Cells, HEK293 Cells
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