A segmentation protocol and MRI atlas of the C57BL/6J mouse neocortex
The neocortex is the largest component of the mammalian cerebral cortex. It integrates sensory inputs with experiences and memory to produce sophisticated responses to an organism's internal and external environment. While areal patterning of the mouse neocortex has been mapped using histologic...
| Main Authors: | , , , , |
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| Format: | Journal Article |
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Academic Press
2013
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| Online Access: | http://hdl.handle.net/20.500.11937/5061 |
| _version_ | 1848744690921242624 |
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| author | Ullmann, J. Watson, Charles Janke, A. Kurniawan, N. Reutens, D. |
| author_facet | Ullmann, J. Watson, Charles Janke, A. Kurniawan, N. Reutens, D. |
| author_sort | Ullmann, J. |
| building | Curtin Institutional Repository |
| collection | Online Access |
| description | The neocortex is the largest component of the mammalian cerebral cortex. It integrates sensory inputs with experiences and memory to produce sophisticated responses to an organism's internal and external environment. While areal patterning of the mouse neocortex has been mapped using histological techniques, the neocortex has not been comprehensively segmented in magnetic resonance images. This study presents a method for systematic segmentation of the C57BL/6J mouse neocortex. We created a minimum deformation atlas, which was hierarchically segmented into 74 neocortical and cortical-related regions, making it the most detailed atlas of the mouse neocortex currently available. In addition, we provide mean volumes and relative intensities for each structure as well as a nomenclature comparison between the two most cited histological atlases of the mouse brain. This MR atlas is available for download, and it should enable researchers to perform automated segmentation in genetic models of cortical disorders. |
| first_indexed | 2025-11-14T06:05:29Z |
| format | Journal Article |
| id | curtin-20.500.11937-5061 |
| institution | Curtin University Malaysia |
| institution_category | Local University |
| last_indexed | 2025-11-14T06:05:29Z |
| publishDate | 2013 |
| publisher | Academic Press |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | curtin-20.500.11937-50612017-09-13T14:45:48Z A segmentation protocol and MRI atlas of the C57BL/6J mouse neocortex Ullmann, J. Watson, Charles Janke, A. Kurniawan, N. Reutens, D. Cortex Magnetic resonance imaging Segmentation Isocortex Atlas The neocortex is the largest component of the mammalian cerebral cortex. It integrates sensory inputs with experiences and memory to produce sophisticated responses to an organism's internal and external environment. While areal patterning of the mouse neocortex has been mapped using histological techniques, the neocortex has not been comprehensively segmented in magnetic resonance images. This study presents a method for systematic segmentation of the C57BL/6J mouse neocortex. We created a minimum deformation atlas, which was hierarchically segmented into 74 neocortical and cortical-related regions, making it the most detailed atlas of the mouse neocortex currently available. In addition, we provide mean volumes and relative intensities for each structure as well as a nomenclature comparison between the two most cited histological atlases of the mouse brain. This MR atlas is available for download, and it should enable researchers to perform automated segmentation in genetic models of cortical disorders. 2013 Journal Article http://hdl.handle.net/20.500.11937/5061 10.1016/j.neuroimage.2013.04.008 Academic Press restricted |
| spellingShingle | Cortex Magnetic resonance imaging Segmentation Isocortex Atlas Ullmann, J. Watson, Charles Janke, A. Kurniawan, N. Reutens, D. A segmentation protocol and MRI atlas of the C57BL/6J mouse neocortex |
| title | A segmentation protocol and MRI atlas of the C57BL/6J mouse neocortex |
| title_full | A segmentation protocol and MRI atlas of the C57BL/6J mouse neocortex |
| title_fullStr | A segmentation protocol and MRI atlas of the C57BL/6J mouse neocortex |
| title_full_unstemmed | A segmentation protocol and MRI atlas of the C57BL/6J mouse neocortex |
| title_short | A segmentation protocol and MRI atlas of the C57BL/6J mouse neocortex |
| title_sort | segmentation protocol and mri atlas of the c57bl/6j mouse neocortex |
| topic | Cortex Magnetic resonance imaging Segmentation Isocortex Atlas |
| url | http://hdl.handle.net/20.500.11937/5061 |