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Automated segmentation of the substantia nigra, subthalamic nucleus and red nucleus in 7 T data at young and old age

With recent developments in MR acquisition at 7 T, smaller brainstem structures such as the red nuclei, substantia nigra and subthalamic nuclei can be imaged with good contrast and resolution. These structures have important roles both in the study of the healthy brain and in diseases such as Parkin...

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Detalles Bibliográficos
Autores principales: Visser, Eelke, Keuken, Max C., Forstmann, Birte U., Jenkinson, Mark
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Academic Press 2016
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4988791/
https://www.ncbi.nlm.nih.gov/pubmed/27349329
http://dx.doi.org/10.1016/j.neuroimage.2016.06.039
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author Visser, Eelke
Keuken, Max C.
Forstmann, Birte U.
Jenkinson, Mark
author_facet Visser, Eelke
Keuken, Max C.
Forstmann, Birte U.
Jenkinson, Mark
author_sort Visser, Eelke
collection PubMed
description With recent developments in MR acquisition at 7 T, smaller brainstem structures such as the red nuclei, substantia nigra and subthalamic nuclei can be imaged with good contrast and resolution. These structures have important roles both in the study of the healthy brain and in diseases such as Parkinson's disease, but few methods have been described to automatically segment them. In this paper, we extend a method that we have previously proposed for segmentation of the striatum and globus pallidus to segment these deeper and smaller structures. We modify the method to allow more direct control over segmentation smoothness by using a Markov random field prior. We investigate segmentation performance in three age groups and show that the method produces consistent results that correspond well with manual segmentations. We perform a vertex-based analysis to identify changes with age in the shape of the structures and present results suggesting that the method may be at least as effective as manual delineation in capturing differences between subjects.
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spelling pubmed-49887912016-10-01 Automated segmentation of the substantia nigra, subthalamic nucleus and red nucleus in 7 T data at young and old age Visser, Eelke Keuken, Max C. Forstmann, Birte U. Jenkinson, Mark Neuroimage Article With recent developments in MR acquisition at 7 T, smaller brainstem structures such as the red nuclei, substantia nigra and subthalamic nuclei can be imaged with good contrast and resolution. These structures have important roles both in the study of the healthy brain and in diseases such as Parkinson's disease, but few methods have been described to automatically segment them. In this paper, we extend a method that we have previously proposed for segmentation of the striatum and globus pallidus to segment these deeper and smaller structures. We modify the method to allow more direct control over segmentation smoothness by using a Markov random field prior. We investigate segmentation performance in three age groups and show that the method produces consistent results that correspond well with manual segmentations. We perform a vertex-based analysis to identify changes with age in the shape of the structures and present results suggesting that the method may be at least as effective as manual delineation in capturing differences between subjects. Academic Press 2016-10-01 /pmc/articles/PMC4988791/ /pubmed/27349329 http://dx.doi.org/10.1016/j.neuroimage.2016.06.039 Text en © 2016 The Authors http://creativecommons.org/licenses/by/4.0/ This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Visser, Eelke
Keuken, Max C.
Forstmann, Birte U.
Jenkinson, Mark
Automated segmentation of the substantia nigra, subthalamic nucleus and red nucleus in 7 T data at young and old age
title Automated segmentation of the substantia nigra, subthalamic nucleus and red nucleus in 7 T data at young and old age
title_full Automated segmentation of the substantia nigra, subthalamic nucleus and red nucleus in 7 T data at young and old age
title_fullStr Automated segmentation of the substantia nigra, subthalamic nucleus and red nucleus in 7 T data at young and old age
title_full_unstemmed Automated segmentation of the substantia nigra, subthalamic nucleus and red nucleus in 7 T data at young and old age
title_short Automated segmentation of the substantia nigra, subthalamic nucleus and red nucleus in 7 T data at young and old age
title_sort automated segmentation of the substantia nigra, subthalamic nucleus and red nucleus in 7 t data at young and old age
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4988791/
https://www.ncbi.nlm.nih.gov/pubmed/27349329
http://dx.doi.org/10.1016/j.neuroimage.2016.06.039
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