Atlas registration for edema-corrected MRI lesion volume in mouse stroke models
Lesion volume measurements with magnetic resonance imaging are widely used to assess outcome in rodent models of stroke. In this study, we improved a mathematical framework to correct lesion size for edema which is based on manual delineation of the lesion and hemispheres. Furthermore, a novel MATLA...
| Main Authors: | , , , , , , , , , , , , |
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| Format: | Article |
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SAGE Publications
2017
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| Online Access: | https://eprints.nottingham.ac.uk/45123/ |
| _version_ | 1848797074115526656 |
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| author | Koch, Stefan Mueller, Susanne Foddis, Marco Bienert, Thomas von Elverfeldt, Dominik Knab, Felix Farr, Tracy D. Bernard, René Dopatka, Monika Rex, André Dirnagl, Ulrich Harms, Christoph Boehm-Sturm, Philipp |
| author_facet | Koch, Stefan Mueller, Susanne Foddis, Marco Bienert, Thomas von Elverfeldt, Dominik Knab, Felix Farr, Tracy D. Bernard, René Dopatka, Monika Rex, André Dirnagl, Ulrich Harms, Christoph Boehm-Sturm, Philipp |
| author_sort | Koch, Stefan |
| building | Nottingham Research Data Repository |
| collection | Online Access |
| description | Lesion volume measurements with magnetic resonance imaging are widely used to assess outcome in rodent models of stroke. In this study, we improved a mathematical framework to correct lesion size for edema which is based on manual delineation of the lesion and hemispheres. Furthermore, a novel MATLAB toolbox to register mouse brain MR images to the Allen brain atlas is presented. Its capability to calculate edema-corrected lesion size was compared to the manual approach. Automated image registration performed equally well in in a mouse middle cerebral artery occlusion model (Pearson r=0.976, p=2.265e-11). Information encapsulated in the registration was used to generate maps of edema induced tissue volume changes. These showed discrepancies to simplified tissue models underlying the manual approach. The presented techniques provide biologically more meaningful, voxel-wise biomarkers of vasogenic edema after stroke. |
| first_indexed | 2025-11-14T19:58:05Z |
| format | Article |
| id | nottingham-45123 |
| institution | University of Nottingham Malaysia Campus |
| institution_category | Local University |
| last_indexed | 2025-11-14T19:58:05Z |
| publishDate | 2017 |
| publisher | SAGE Publications |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | nottingham-451232020-05-04T19:01:25Z https://eprints.nottingham.ac.uk/45123/ Atlas registration for edema-corrected MRI lesion volume in mouse stroke models Koch, Stefan Mueller, Susanne Foddis, Marco Bienert, Thomas von Elverfeldt, Dominik Knab, Felix Farr, Tracy D. Bernard, René Dopatka, Monika Rex, André Dirnagl, Ulrich Harms, Christoph Boehm-Sturm, Philipp Lesion volume measurements with magnetic resonance imaging are widely used to assess outcome in rodent models of stroke. In this study, we improved a mathematical framework to correct lesion size for edema which is based on manual delineation of the lesion and hemispheres. Furthermore, a novel MATLAB toolbox to register mouse brain MR images to the Allen brain atlas is presented. Its capability to calculate edema-corrected lesion size was compared to the manual approach. Automated image registration performed equally well in in a mouse middle cerebral artery occlusion model (Pearson r=0.976, p=2.265e-11). Information encapsulated in the registration was used to generate maps of edema induced tissue volume changes. These showed discrepancies to simplified tissue models underlying the manual approach. The presented techniques provide biologically more meaningful, voxel-wise biomarkers of vasogenic edema after stroke. SAGE Publications 2017-08-22 Article PeerReviewed Koch, Stefan, Mueller, Susanne, Foddis, Marco, Bienert, Thomas, von Elverfeldt, Dominik, Knab, Felix, Farr, Tracy D., Bernard, René, Dopatka, Monika, Rex, André, Dirnagl, Ulrich, Harms, Christoph and Boehm-Sturm, Philipp (2017) Atlas registration for edema-corrected MRI lesion volume in mouse stroke models. Journal of Cerebral Blood Flow & Metabolism . ISSN 1559-7016 http://journals.sagepub.com/doi/10.1177/0271678X17726635 doi:10.1177/0271678X17726635 doi:10.1177/0271678X17726635 |
| spellingShingle | Koch, Stefan Mueller, Susanne Foddis, Marco Bienert, Thomas von Elverfeldt, Dominik Knab, Felix Farr, Tracy D. Bernard, René Dopatka, Monika Rex, André Dirnagl, Ulrich Harms, Christoph Boehm-Sturm, Philipp Atlas registration for edema-corrected MRI lesion volume in mouse stroke models |
| title | Atlas registration for edema-corrected MRI lesion volume in mouse stroke models |
| title_full | Atlas registration for edema-corrected MRI lesion volume in mouse stroke models |
| title_fullStr | Atlas registration for edema-corrected MRI lesion volume in mouse stroke models |
| title_full_unstemmed | Atlas registration for edema-corrected MRI lesion volume in mouse stroke models |
| title_short | Atlas registration for edema-corrected MRI lesion volume in mouse stroke models |
| title_sort | atlas registration for edema-corrected mri lesion volume in mouse stroke models |
| url | https://eprints.nottingham.ac.uk/45123/ https://eprints.nottingham.ac.uk/45123/ https://eprints.nottingham.ac.uk/45123/ |