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Updated: May 29, 2026

Outer-Boundary Assisted Segmentation and Quantification of Trabecular Bones by an Imagej Plugin
Published on: March 14, 2018
Normalized volume of interest selection and measurement of bone volume in microCT scans
T J A Snoeks1, E L Kaijzel, I Que
1Department of Endocrinology and Metabolic Diseases, Leiden University Medical Center, Leiden, The Netherlands. t.j.a.snoeks@lumc.nl
Abstract:
Quantification of osteolytic lesions in bone is pivotal in the research of metastatic bone disease in small animal models. Osteolytic lesions are quantified using 2D X-ray photographs, which often neglects to take into account any changes in 3D structure. Furthermore, measurement errors are inadvertently introduced when a region of interest with predefined dimensions is used during MicroCT analysis. To study osteolytic processes, a normalized method of selecting a region of interest is required. Here we describe a new method to select volumes of interest in a normalized way regardless of curvature, fractures or dislocations within the bone. In addition, this method enables the user to visualize normalized cross sections in an exact 90° angle or along the longitudinal axis of bone, at any given point. As a result, the user can compare measurements of diameter, volume and structure between different bones in a normalized manner.
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