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Related Experiment Video

Updated: Jan 14, 2026

A Method of Targeted Cell Isolation via Glass Surface Functionalization
10:40

A Method of Targeted Cell Isolation via Glass Surface Functionalization

Published on: September 20, 2016

9.8K

VESNA: an open-source tool for automated 3D vessel segmentation and network analysis.

Magdalena Schüttler1, Leyla Doğan2, Jana Kirchner2

  • 1Faculty of Biology, Center for Computational and Theoretical Biology, Julius-Maximilians-Universität Würzburg, Klara-Oppenheimer-Weg 32, 97074, Würzburg, Germany. magdalena.schuettler@stud-mail.uni-wuerzburg.de.

BMC Bioinformatics
|October 22, 2025
PubMed
Summary

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VESNA is a new Fiji macro for analyzing 3D vascular networks. This automated tool processes large image datasets with minimal experimental preparation, aiding research in tissue development and disease.

Area of Science:

  • Biomedical imaging
  • Quantitative biology
  • Vascular biology

Background:

  • Vascular networks are crucial in tissues and organs, playing a role in various diseases.
  • Current blood vessel image analysis software has limitations, including 2D data processing, lack of batch processing, and strict experimental condition requirements.
  • There is a need for adaptable software capable of batch processing 3D image data with simple preparation.

Purpose of the Study:

  • To develop an automated software tool for quantitative analysis of three-dimensional vascular networks.
  • To create a flexible macro adaptable to diverse experimental conditions and tissue culturing methods.

Main Methods:

  • Development of VESNA, a Fiji (ImageJ) macro for automated segmentation and skeletonization of 3D fluorescence images.
Keywords:
3D tissue cultureAngiogenesisBlood vesselFijiFluorescence imagingHydrogel cultureImage analysisImage processingImageJOrganoids

Related Experiment Videos

Last Updated: Jan 14, 2026

A Method of Targeted Cell Isolation via Glass Surface Functionalization
10:40

A Method of Targeted Cell Isolation via Glass Surface Functionalization

Published on: September 20, 2016

9.8K
  • Application of VESNA to various 3D image datasets, including organoids and hydrogel-based cultures.
  • Demonstration of VESNA's adaptability across different experimental goals and tissue culturing techniques.

    • Main Results:

    • VESNA enables automated, quantitative analysis of vascular networks from 3D fluorescence images.
    • The macro successfully processed diverse datasets, including organoids of varying sizes and complexities, and hydrogel cultures.
    • VESNA requires minimal experimental preparation, demonstrating high adaptability.

    Conclusions:

    • VESNA addresses the need for efficient processing of large 3D vascular image data.
    • Its flexibility across experimental conditions makes it valuable for drug screening, tissue development research, and disease mechanism studies.
    • VESNA serves as a versatile tool for diverse three-dimensional vasculature research applications.