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Open Access 01-12-2019 | Magnetic Resonance Imaging | Database

Lumbar muscle and vertebral bodies segmentation of chemical shift encoding-based water-fat MRI: the reference database MyoSegmenTUM spine

Authors: Egon Burian, Alexander Rohrmeier, Sarah Schlaeger, Michael Dieckmeyer, Maximilian N. Diefenbach, Jan Syväri, Elisabeth Klupp, Dominik Weidlich, Claus Zimmer, Ernst J. Rummeny, Dimitrios C. Karampinos, Jan S. Kirschke, Thomas Baum

Published in: BMC Musculoskeletal Disorders | Issue 1/2019

Abstract

Background

Magnetic resonance imaging (MRI) is the modality of choice for diagnosing and monitoring muscular tissue pathologies and bone marrow alterations in the context of lower back pain, neuromuscular diseases and osteoporosis. Chemical shift encoding-based water-fat MRI allows for reliable determination of proton density fat fraction (PDFF) of the muscle and bone marrow. Prior to quantitative data extraction, segmentation of the examined structures is needed. Performed manually, the segmentation process is time consuming and therefore limiting the clinical applicability. Thus, the development of automated segmentation algorithms is an ongoing research focus.

Construction and content

This database provides ground truth data which may help to develop and test automatic lumbar muscle and vertebra segmentation algorithms. Lumbar muscle groups and vertebral bodies (L1 to L5) were manually segmented in chemical shift encoding-based water-fat MRI and made publically available in the database MyoSegmenTUM. The database consists of water, fat and PDFF images with corresponding segmentation masks for lumbar muscle groups (right/left erector spinae and psoas muscles, respectively) and lumbar vertebral bodies 1–5 of 54 healthy Caucasian subjects. The database is freely accessible online at https://osf.io/3j54b/?view_only=f5089274d4a449cda2fef1d2df0ecc56.

Conclusion

A development and testing of segmentation algorithms based on this database may allow the use of quantitative MRI in clinical routine.

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Title: Lumbar muscle and vertebral bodies segmentation of chemical shift encoding-based water-fat MRI: the reference database MyoSegmenTUM spine
Authors: Egon Burian
Alexander Rohrmeier
Sarah Schlaeger
Michael Dieckmeyer
Maximilian N. Diefenbach
Jan Syväri
Elisabeth Klupp
Dominik Weidlich
Claus Zimmer
Ernst J. Rummeny
Dimitrios C. Karampinos
Jan S. Kirschke
Thomas Baum
Publication date: 01-12-2019
Publisher: BioMed Central
Keywords: Magnetic Resonance Imaging
Magnetic Resonance Imaging
Published in: BMC Musculoskeletal Disorders / Issue 1/2019
Electronic ISSN: 1471-2474
DOI: https://doi.org/10.1186/s12891-019-2528-x

At a glance: The STEP trials

Springer Medicine

Lumbar muscle and vertebral bodies segmentation of chemical shift encoding-based water-fat MRI: the reference database MyoSegmenTUM spine

Abstract

Background

Construction and content

Conclusion

At a glance: The STEP trials

Springer Medicine

Abstract

Background

Construction and content

Conclusion

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