Semi-automated 3D segmentation of major tracts in the rat brain: comparing DTI with standard histological methods
Researchers working with rodent models of neurological disease often require an accurate map of the anatomical organization of the white matter of the rodent brain. With the increasing popularity of small animal MRI techniques, including diffusion tensor imaging (DTI), there is considerable interest...
| Main Authors: | , , , , , |
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| Format: | Journal Article |
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Springer
2013
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| Online Access: | http://hdl.handle.net/20.500.11937/22542 |
| _version_ | 1848750898977701888 |
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| author | Gyengesi, E. Calabrese, E. Sherrier, M. Johnson, G. Paxinos, G. Watson, Charles |
| author_facet | Gyengesi, E. Calabrese, E. Sherrier, M. Johnson, G. Paxinos, G. Watson, Charles |
| author_sort | Gyengesi, E. |
| building | Curtin Institutional Repository |
| collection | Online Access |
| description | Researchers working with rodent models of neurological disease often require an accurate map of the anatomical organization of the white matter of the rodent brain. With the increasing popularity of small animal MRI techniques, including diffusion tensor imaging (DTI), there is considerable interest in rapid segmentation methods of neurological structures for quantitative comparisons. DTI-derived tractography allows simple and rapid segmentation of major white matter tracts, but the anatomic accuracy of these computer-generated fibers is open to question and has not been rigorously evaluated in the rat brain. In this study, we examine the anatomic accuracy of tractography-based segmentation in the adult rat brain. We analysed 12 major white matter pathways using semi-automated tractography-based segmentation alongside manual segmentation of Gallyas silver-stained histology sections. We applied four fiber-tracking algorithms to the DTI data—two integration methods and two deflection methods. In many cases, tractography-based segmentation closely matched histology-based segmentation; however different tractography algorithms produced dramatically different results. Results suggest that certain white matter pathways are more amenable to tractography-based segmentation than others. We believe that these data will help researchers decide whether it is appropriate to use tractography-based segmentation of white matter structures for quantitative DTI-based analysis of neurologic disease models. |
| first_indexed | 2025-11-14T07:44:09Z |
| format | Journal Article |
| id | curtin-20.500.11937-22542 |
| institution | Curtin University Malaysia |
| institution_category | Local University |
| last_indexed | 2025-11-14T07:44:09Z |
| publishDate | 2013 |
| publisher | Springer |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | curtin-20.500.11937-225422018-03-29T09:06:35Z Semi-automated 3D segmentation of major tracts in the rat brain: comparing DTI with standard histological methods Gyengesi, E. Calabrese, E. Sherrier, M. Johnson, G. Paxinos, G. Watson, Charles DTI Gallyas silver myelin staining Automated segmentation MRI Researchers working with rodent models of neurological disease often require an accurate map of the anatomical organization of the white matter of the rodent brain. With the increasing popularity of small animal MRI techniques, including diffusion tensor imaging (DTI), there is considerable interest in rapid segmentation methods of neurological structures for quantitative comparisons. DTI-derived tractography allows simple and rapid segmentation of major white matter tracts, but the anatomic accuracy of these computer-generated fibers is open to question and has not been rigorously evaluated in the rat brain. In this study, we examine the anatomic accuracy of tractography-based segmentation in the adult rat brain. We analysed 12 major white matter pathways using semi-automated tractography-based segmentation alongside manual segmentation of Gallyas silver-stained histology sections. We applied four fiber-tracking algorithms to the DTI data—two integration methods and two deflection methods. In many cases, tractography-based segmentation closely matched histology-based segmentation; however different tractography algorithms produced dramatically different results. Results suggest that certain white matter pathways are more amenable to tractography-based segmentation than others. We believe that these data will help researchers decide whether it is appropriate to use tractography-based segmentation of white matter structures for quantitative DTI-based analysis of neurologic disease models. 2013 Journal Article http://hdl.handle.net/20.500.11937/22542 10.1007/s00429-013-0516-8 Springer restricted |
| spellingShingle | DTI Gallyas silver myelin staining Automated segmentation MRI Gyengesi, E. Calabrese, E. Sherrier, M. Johnson, G. Paxinos, G. Watson, Charles Semi-automated 3D segmentation of major tracts in the rat brain: comparing DTI with standard histological methods |
| title | Semi-automated 3D segmentation of major tracts in the rat brain: comparing DTI with standard histological methods |
| title_full | Semi-automated 3D segmentation of major tracts in the rat brain: comparing DTI with standard histological methods |
| title_fullStr | Semi-automated 3D segmentation of major tracts in the rat brain: comparing DTI with standard histological methods |
| title_full_unstemmed | Semi-automated 3D segmentation of major tracts in the rat brain: comparing DTI with standard histological methods |
| title_short | Semi-automated 3D segmentation of major tracts in the rat brain: comparing DTI with standard histological methods |
| title_sort | semi-automated 3d segmentation of major tracts in the rat brain: comparing dti with standard histological methods |
| topic | DTI Gallyas silver myelin staining Automated segmentation MRI |
| url | http://hdl.handle.net/20.500.11937/22542 |