Segmentation and morphological analysis of amyloid fibrils from cryo-EM image data Article Swipe
Matthias Weber
,
Matthias Neumann
,
Matthias Schmidt
,
Peter Benedikt Pfeiffer
,
Akanksha Bansal
,
Marcus Fändrich
,
Volker Schmidt
·
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1186/s13362-023-00131-8
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1186/s13362-023-00131-8
Fast assessment of the composition of amyloid fibril samples from cryo-EM data poses a serious challenge to existing image analysis tools. We develop a method for automated segmentation of single fibrils requiring only little user input during the training process. This is achieved by combining a binary segmentation based on a convolutional neural network with preprocessing steps to allow for easy manual generation of training data. Subsequent skeletonization turns the binary segmentation into a single-object segmentation. Then, we compute properties of shape and texture of each segmented fibril, including an estimation of the fibril width. We discuss the composition of the sample based on the distributions of these computed properties and outline how a classification of fibril morphologies might be performed using these properties.
Related Topics
Concepts
Skeletonization
Segmentation
Computer science
Artificial intelligence
Preprocessor
Fibril
Image segmentation
Pattern recognition (psychology)
Convolutional neural network
Sample (material)
Binary number
Texture (cosmology)
Computer vision
Image (mathematics)
Biological system
Materials science
Mathematics
Chemistry
Biophysics
Biology
Arithmetic
Chromatography
Metadata
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1186/s13362-023-00131-8
- https://mathematicsinindustry.springeropen.com/counter/pdf/10.1186/s13362-023-00131-8
- OA Status
- gold
- Cited By
- 2
- References
- 33
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4319350101
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W4319350101Canonical identifier for this work in OpenAlex
- DOI
-
https://doi.org/10.1186/s13362-023-00131-8Digital Object Identifier
- Title
-
Segmentation and morphological analysis of amyloid fibrils from cryo-EM image dataWork title
- Type
-
articleOpenAlex work type
- Language
-
enPrimary language
- Publication year
-
2023Year of publication
- Publication date
-
2023-02-07Full publication date if available
- Authors
-
Matthias Weber, Matthias Neumann, Matthias Schmidt, Peter Benedikt Pfeiffer, Akanksha Bansal, Marcus Fändrich, Volker SchmidtList of authors in order
- Landing page
-
https://doi.org/10.1186/s13362-023-00131-8Publisher landing page
- PDF URL
-
https://mathematicsinindustry.springeropen.com/counter/pdf/10.1186/s13362-023-00131-8Direct link to full text PDF
- Open access
-
YesWhether a free full text is available
- OA status
-
goldOpen access status per OpenAlex
- OA URL
-
https://mathematicsinindustry.springeropen.com/counter/pdf/10.1186/s13362-023-00131-8Direct OA link when available
- Concepts
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Skeletonization, Segmentation, Computer science, Artificial intelligence, Preprocessor, Fibril, Image segmentation, Pattern recognition (psychology), Convolutional neural network, Sample (material), Binary number, Texture (cosmology), Computer vision, Image (mathematics), Biological system, Materials science, Mathematics, Chemistry, Biophysics, Biology, Arithmetic, ChromatographyTop concepts (fields/topics) attached by OpenAlex
- Cited by
-
2Total citation count in OpenAlex
- Citations by year (recent)
-
2025: 1, 2024: 1Per-year citation counts (last 5 years)
- References (count)
-
33Number of works referenced by this work
- Related works (count)
-
10Other works algorithmically related by OpenAlex
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