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Subsegmentation of the kidney in experimental MR images using morphology-based regions-of-interest or multiple-layer concentric objects

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Item Type:Article
Title:Subsegmentation of the kidney in experimental MR images using morphology-based regions-of-interest or multiple-layer concentric objects
Creators Name:Riazy, L. and Milani, B. and Periquito, J.S. and Cantow, K. and Niendorf, T. and Pruijm, M. and Seeliger, E. and Pohlmann, A.
Abstract:Functional renal MRI promises access to a wide range of physiologically relevant parameters such as blood oxygenation, perfusion, tissue microstructure, pH, and sodium concentration. For quantitative comparison of results, representative values must be extracted from the parametric maps obtained with these different MRI techniques. To improve reproducibility of results this should be done based on regions-of-interest (ROIs) that are clearly and objectively defined.Semiautomated subsegmentation of the kidney in magnetic resonance images represents a simple but very valuable approach for the quantitative analysis of imaging parameters in multiple ROIs that are associated with specific anatomic locations. Thereby, it facilitates comparing MR parameters between different kidney regions, as well as tracking changes over time.Here we provide detailed step-by-step instructions for two recently developed subsegmentation techniques that are suitable for kidneys of small rodents: i) the placement of ROIs in cortex, outer and the inner medulla based on typical kidney morphology and ii) the division of the kidney into concentrically oriented layers.This chapter is based upon work from the COST Action PARENCHIMA, a community-driven network funded by the European Cooperation in Science and Technology (COST) program of the European Union, which aims to improve the reproducibility and standardization of renal MRI biomarkers.
Keywords:Magnetic Resonance Imaging (MRI), Kidney, Segmentation, ROI, Animals
Source:Methods in Molecular Biology
Series Name:Methods in Molecular Biology
Title of Book:Preclinical MRI of the kidney : methods and protocols
Publisher:Springer / Humana Press
Page Range:549-564
Official Publication:https://doi.org/10.1007/978-1-0716-0978-1_33
PubMed:View item in PubMed
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