Machine learning topological defects in confluent
tissues
tissues
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Published version
Author(s)
Killeen, andy
Bertrand, thibault
Lee, Chiu Fan
Type
Journal Article
Abstract
Active nematics is an emerging paradigm for characterizing biological systems. One aspect of particularly intense focus is the role active nematic defects play in these systems, as they have been found to mediate a growing number of biological processes. Accurately detecting and classifying these defects in biological systems is, therefore, of vital importance to improving our understanding of such processes. While robust methods for defect detection exist for systems of elongated constituents, other systems, such as epithelial layers, are not well suited to such methods. Here, we address this problem by developing a convolutional neural network to detect and classify nematic defects in confluent cell layers. Crucially, our method is readily implementable on experimental images of cell layers and is specifically designed to be suitable for cells that are not rod shaped, which we demonstrate by detecting defects on experimental data using the trained model. We show that our machine learning model outperforms current defect detection techniques and that this manifests itself in our method as requiring less data to accurately capture defect properties. This could drastically improve the accuracy of experimental data interpretation while also reducing costs, advancing the study of nematic defects in biological systems.
Date Issued
2024-03-13
Date Acceptance
2023-12-26
Citation
Biophysical Reports, 2024, 4 (1)
ISSN
2667-0747
Publisher
Elsevier
Journal / Book Title
Biophysical Reports
Volume
4
Issue
1
Copyright Statement
© 2024 The Author(s).
This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).
This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).
License URL
Publication Status
Published
Article Number
ARTN 100142
Date Publish Online
2024-01-09