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Conference Paper

Particle-based Segmentation of Extended Objects on Curved Biological Membranes.

MPS-Authors
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Solomatina,  Anastasia
Max Planck Institute for Molecular Cell Biology and Genetics, Max Planck Society;

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Kalaidzidis,  Yannis
Max Planck Institute for Molecular Cell Biology and Genetics, Max Planck Society;

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Cezanne,  Alice
Max Planck Institute for Molecular Cell Biology and Genetics, Max Planck Society;

/persons/resource/persons219675

Soans,  Karen
Max Planck Institute for Molecular Cell Biology and Genetics, Max Planck Society;

/persons/resource/persons219494

Norden,  Caren
Max Planck Institute for Molecular Cell Biology and Genetics, Max Planck Society;

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Zerial,  Marino
Max Planck Institute for Molecular Cell Biology and Genetics, Max Planck Society;

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Sbalzarini,  Ivo F.
Max Planck Institute for Molecular Cell Biology and Genetics, Max Planck Society;

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Citation

Solomatina, A., Kalaidzidis, Y., Cezanne, A., Soans, K., Norden, C., Zerial, M., et al. (2021). Particle-based Segmentation of Extended Objects on Curved Biological Membranes. In ISBI 2021, IEEE International Symposium on Biomedical Imaging (ISBI) (pp. 1150-1154). Piscataway, N.J.: IEEE.


Cite as: https://hdl.handle.net/21.11116/0000-0008-DA5C-C
Abstract
We present a novel method for model-based segmentation of extended, blob-like objects on curved surfaces. Our method addresses several challenges arising when imaging curved biological membrane, such as out-of-membrane signal and geometry-induced background variations. We use a particle-based reconstruction of the membrane geometry, moment-conserving intensity interpolation from pixels to surface particles, and model-based in-surface segmentation. Our method denoises and deconvolves images, corrects for background variations, and quantifies the number, size, and intensity of segmented objects. We benchmark the accuracy of the method and present two applications to (1) neuroepithelial focal adhesion sites during optic cup morphogenesis in zebrafish and (2) reconstituted membrane domains bearing the small GTPase Rab5 on spherical beads.