3D Quantification of Vascular-Like Structures in z Stack Confocal Images
| Autor: | Elena M. De-Juan-Pardo, Anthony Lighterness, Carsten Werner, Laura J. Bray, Ulrich Bonda, Anna Jaeschke, Jeremy Baldwin |
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| Jazyk: | angličtina |
| Rok vydání: | 2020 |
| Předmět: |
Microscopy
Microscopy Confocal General Immunology and Microbiology Staining and Labeling Tissue Engineering Computer science General Neuroscience Confocal 3d analysis Limiting General Biochemistry Genetics and Molecular Biology In vitro model 3D cell culture Imaging Three-Dimensional Stack (abstract data type) Maximum intensity projection Protocol Blood Vessels Cell culture lcsh:Science (General) Algorithms lcsh:Q1-390 Biomedical engineering |
| Zdroj: | STAR Protocols STAR Protocols, Vol 1, Iss 3, Pp 100180-(2020) |
| DOI: | 10.34657/10050 |
| Popis: | Summary 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). Graphical Abstract Highlights • The 3D analysis of z stack confocal images is critical to obtain accurate data • Detailed step-by-step protocol for quantitative analysis of vascular-like structures • Tcl and Python scripts are included to facilitate automated image analysis 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. |
| Databáze: | OpenAIRE |
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