Self-supervised learning for generalizable particle picking in cryo-EM micrographs Article Swipe
Andreas Zamanos
,
Panagiotis Koromilas
,
Giorgos Bouritsas
,
Panagiotis L. Kastritis
,
Yannis Panagakis
·
YOU?
·
· 2025
· Open Access
·
· DOI: https://doi.org/10.1016/j.crmeth.2025.101089
YOU?
·
· 2025
· Open Access
·
· DOI: https://doi.org/10.1016/j.crmeth.2025.101089
We present cryoelectron microscopy masked autoencoder (cryo-EMMAE), a self-supervised method designed to overcome the need for manually annotated cryo-EM data. cryo-EMMAE leverages the representation space of a masked autoencoder to pick particle pixels through clustering of the MAE latent representation. Evaluation across different EMPIAR datasets demonstrates that cryo-EMMAE outperforms state-of-the-art supervised methods in terms of generalization capabilities. Importantly, our method showcases consistent performance, independent of the dataset used for training. Additionally, cryo-EMMAE is data efficient, as we experimentally observe that it converges with as few as five micrographs. Further, 3D reconstruction results indicate that our method has superior performance in reconstructing the volumes in both single-particle datasets and multi-particle micrographs derived from cell extracts. Our results underscore the potential of self-supervised learning in advancing cryo-EM image analysis, offering an alternative for more efficient and cost-effective structural biology research. Code is available at https://github.com/azamanos/Cryo-EMMAE.
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- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1016/j.crmeth.2025.101089
- https://www.cell.com/cell-reports-methods/pdf/S2667-2375(25)00125-0.pdf
- OA Status
- gold
- Cited By
- 1
- References
- 76
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4412087773
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https://openalex.org/W4412087773Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1016/j.crmeth.2025.101089Digital Object Identifier
- Title
-
Self-supervised learning for generalizable particle picking in cryo-EM micrographsWork title
- Type
-
articleOpenAlex work type
- Language
-
enPrimary language
- Publication year
-
2025Year of publication
- Publication date
-
2025-07-01Full publication date if available
- Authors
-
Andreas Zamanos, Panagiotis Koromilas, Giorgos Bouritsas, Panagiotis L. Kastritis, Yannis PanagakisList of authors in order
- Landing page
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https://doi.org/10.1016/j.crmeth.2025.101089Publisher landing page
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https://www.cell.com/cell-reports-methods/pdf/S2667-2375(25)00125-0.pdfDirect link to full text PDF
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YesWhether a free full text is available
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-
goldOpen access status per OpenAlex
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https://www.cell.com/cell-reports-methods/pdf/S2667-2375(25)00125-0.pdfDirect OA link when available
- Concepts
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Artificial intelligence, Electron micrographs, Particle (ecology), Single particle analysis, Computer science, Computer vision, Pattern recognition (psychology), Machine learning, Physics, Optics, Biology, Electron microscope, Ecology, Meteorology, AerosolTop concepts (fields/topics) attached by OpenAlex
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1Total citation count in OpenAlex
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2025: 1Per-year citation counts (last 5 years)
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10Other works algorithmically related by OpenAlex
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