3D Quantification of Vascular-Like Structures in z Stack Confocal Images

Optical slice microscopy is commonly used to characterize the morphometric features of 3D cellular cultures, such as in vitro vascularization. However, the quantitative analysis of those structures is often performed on a single 2D maximum intensity projection image, limiting the accuracy of data ob...

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Detalles Bibliográficos
Autores principales: Bonda, Ulrich, Jaeschke, Anna, Lighterness, Anthony, Baldwin, Jeremy, Werner, Carsten, De-Juan-Pardo, Elena M., Bray, Laura J.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2020
Materias:
Protocol
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7757404/
https://www.ncbi.nlm.nih.gov/pubmed/33377074
http://dx.doi.org/10.1016/j.xpro.2020.100180
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author Bonda, Ulrich
Jaeschke, Anna
Lighterness, Anthony
Baldwin, Jeremy
Werner, Carsten
De-Juan-Pardo, Elena M.
Bray, Laura J.
author_facet Bonda, Ulrich
Jaeschke, Anna
Lighterness, Anthony
Baldwin, Jeremy
Werner, Carsten
De-Juan-Pardo, Elena M.
Bray, Laura J.
author_sort Bonda, Ulrich
collection PubMed
description Optical slice microscopy is commonly used to characterize the morphometric features of 3D cellular cultures, such as in vitro vascularization. However, the quantitative analysis of those structures is often performed on a single 2D maximum intensity projection image, limiting the accuracy of data obtained from 3D cultures. Here, we present a protocol for the quantitative analysis of z stack images, utilizing Fiji, Amira, and WinFiber3D. This protocol facilitates the in-depth examination of vascular-like structures within 3D cell culture models. For complete details on the use and execution of this protocol, please refer to Koch et al. (2020).
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spelling pubmed-77574042020-12-28 3D Quantification of Vascular-Like Structures in z Stack Confocal Images Bonda, Ulrich Jaeschke, Anna Lighterness, Anthony Baldwin, Jeremy Werner, Carsten De-Juan-Pardo, Elena M. Bray, Laura J. STAR Protoc Protocol Optical slice microscopy is commonly used to characterize the morphometric features of 3D cellular cultures, such as in vitro vascularization. However, the quantitative analysis of those structures is often performed on a single 2D maximum intensity projection image, limiting the accuracy of data obtained from 3D cultures. Here, we present a protocol for the quantitative analysis of z stack images, utilizing Fiji, Amira, and WinFiber3D. This protocol facilitates the in-depth examination of vascular-like structures within 3D cell culture models. For complete details on the use and execution of this protocol, please refer to Koch et al. (2020). Elsevier 2020-11-21 /pmc/articles/PMC7757404/ /pubmed/33377074 http://dx.doi.org/10.1016/j.xpro.2020.100180 Text en © 2020 The Authors http://creativecommons.org/licenses/by-nc-nd/4.0/ This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
spellingShingle Protocol
Bonda, Ulrich
Jaeschke, Anna
Lighterness, Anthony
Baldwin, Jeremy
Werner, Carsten
De-Juan-Pardo, Elena M.
Bray, Laura J.
3D Quantification of Vascular-Like Structures in z Stack Confocal Images
title 3D Quantification of Vascular-Like Structures in z Stack Confocal Images
title_full 3D Quantification of Vascular-Like Structures in z Stack Confocal Images
title_fullStr 3D Quantification of Vascular-Like Structures in z Stack Confocal Images
title_full_unstemmed 3D Quantification of Vascular-Like Structures in z Stack Confocal Images
title_short 3D Quantification of Vascular-Like Structures in z Stack Confocal Images
title_sort 3d quantification of vascular-like structures in z stack confocal images
topic Protocol
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7757404/
https://www.ncbi.nlm.nih.gov/pubmed/33377074
http://dx.doi.org/10.1016/j.xpro.2020.100180
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