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Related Experiment Video

Updated: Feb 19, 2026

Author Spotlight: High-Resolution Imaging of Mouse Neonate Brains – A Micro-CT Protocol with Lugol's Solution Contrast Agent

Author Spotlight: High-Resolution Imaging of Mouse Neonate Brains – A Micro-CT Protocol with Lugol's Solution Contrast Agent

Published on: May 19, 2023

Quantifying Mesoscale Neuroanatomy Using X-Ray Microtomography.

Eva L Dyer¹, William Gray Roncal^2,3, Judy A Prasad⁴

¹Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA, 30332.

|November 1, 2017

Summary

This summary is machine-generated.

Synchrotron X-ray microtomography (µCT) enables rapid 3D brain mapping of large volumes without sectioning. This method quickly quantifies brain structures like cells and blood vessels at the mesoscale.

Keywords:

Automated segmentation X-ray microtomography cell counting electron microscopy neocortex neuroanatomy

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Area of Science:

Neuroscience
Biophysics
Imaging Science

Background:

Traditional 3D brain microstructure analysis involves sectioning and imaging, which is time-consuming.
Existing methods struggle to rapidly map large brain volumes at high resolution.

Purpose of the Study:

To demonstrate synchrotron X-ray microtomography (µCT) for mesoscale (∼1 µm³) 3D brain mapping.
To develop an integrated pipeline for automated analysis of brain structures using µCT.

Main Methods:

Utilized synchrotron X-ray microtomography (µCT) to image millimeter-scale volumes of mouse brain.
Developed a pipeline for sample preparation, imaging, and automated segmentation of cells, blood vessels, and myelinated axons.
Performed statistical analyses on the mapped brain structures.

Main Results:

Achieved mesoscale resolution (∼1 µm³) for 3D brain mapping from thick samples.
Demonstrated rapid quantification of large brain volumes using µCT.
Successfully segmented cellular and vascular structures within the mapped brain volumes.

Conclusions:

Synchrotron X-ray microtomography (µCT) offers a rapid, non-destructive approach for large-scale 3D brain mapping.
The developed pipeline enables efficient analysis of brain microstructure, complementing existing connectomics efforts.
µCT provides a valuable tool for quantitative analysis of brain structures at the mesoscale.