Mindboggle: Automated brain labeling with multiple atlases
Background: To make inferences about brain structures or activity across multiple individuals, one first needs to determine the structural correspondences across their image data. We have recently developed Mindboggle as a fully automated, feature-matching approach to assign anatomical labels to cor...
| Main Authors: | , , , , |
|---|---|
| Other Authors: | |
| Format: | Article |
| Language: | English |
| Published: |
BioMed Central Ltd
2010
|
| Online Access: | http://hdl.handle.net/1721.1/58996 https://orcid.org/0000-0002-5312-6729 |
| _version_ | 1826204427967528960 |
|---|---|
| author | Klein, Arno Mensh, Brett Ghosh, Satrajit S. Tourville, Jason Hirsch, Joy |
| author2 | Massachusetts Institute of Technology. Research Laboratory of Electronics |
| author_facet | Massachusetts Institute of Technology. Research Laboratory of Electronics Klein, Arno Mensh, Brett Ghosh, Satrajit S. Tourville, Jason Hirsch, Joy |
| author_sort | Klein, Arno |
| collection | MIT |
| description | Background: To make inferences about brain structures or activity across multiple individuals, one first needs to determine the structural correspondences across their image data. We have recently developed Mindboggle as a fully automated, feature-matching approach to assign anatomical labels to cortical structures and activity in human brain MRI data. Label assignment is based on structural correspondences between labeled atlases and unlabeled image data, where an atlas consists of a set of labels manually assigned to a single brain image. In the present work, we study the influence of using variable numbers of individual atlases to nonlinearly label human brain image data. Methods: Each brain image voxel of each of 20 human subjects is assigned a label by each of the remaining 19 atlases using Mindboggle. The most common label is selected and is given a confidence rating based on the number of atlases that assigned that label. The automatically assigned labels for each subject brain are compared with the manual labels for that subject (its atlas). Unlike recent approaches that transform subject data to a labeled, probabilistic atlas space (constructed from a database of atlases), Mindboggle labels a subject by each atlas in a database independently. Results When Mindboggle labels a human subject's brain image with at least four atlases, the resulting label agreement with coregistered manual labels is significantly higher than when only a single atlas is used. Different numbers of atlases provide significantly higher label agreements for individual brain regions. Conclusion: Increasing the number of reference brains used to automatically label a human subject brain improves labeling accuracy with respect to manually assigned labels. Mindboggle software can provide confidence measures for labels based on probabilistic assignment of labels and could be applied to large databases of brain images. |
| first_indexed | 2024-09-23T12:54:54Z |
| format | Article |
| id | mit-1721.1/58996 |
| institution | Massachusetts Institute of Technology |
| language | English |
| last_indexed | 2024-09-23T12:54:54Z |
| publishDate | 2010 |
| publisher | BioMed Central Ltd |
| record_format | dspace |
| spelling | mit-1721.1/589962022-09-28T10:50:49Z Mindboggle: Automated brain labeling with multiple atlases Klein, Arno Mensh, Brett Ghosh, Satrajit S. Tourville, Jason Hirsch, Joy Massachusetts Institute of Technology. Research Laboratory of Electronics Ghosh, Satrajit S. Background: To make inferences about brain structures or activity across multiple individuals, one first needs to determine the structural correspondences across their image data. We have recently developed Mindboggle as a fully automated, feature-matching approach to assign anatomical labels to cortical structures and activity in human brain MRI data. Label assignment is based on structural correspondences between labeled atlases and unlabeled image data, where an atlas consists of a set of labels manually assigned to a single brain image. In the present work, we study the influence of using variable numbers of individual atlases to nonlinearly label human brain image data. Methods: Each brain image voxel of each of 20 human subjects is assigned a label by each of the remaining 19 atlases using Mindboggle. The most common label is selected and is given a confidence rating based on the number of atlases that assigned that label. The automatically assigned labels for each subject brain are compared with the manual labels for that subject (its atlas). Unlike recent approaches that transform subject data to a labeled, probabilistic atlas space (constructed from a database of atlases), Mindboggle labels a subject by each atlas in a database independently. Results When Mindboggle labels a human subject's brain image with at least four atlases, the resulting label agreement with coregistered manual labels is significantly higher than when only a single atlas is used. Different numbers of atlases provide significantly higher label agreements for individual brain regions. Conclusion: Increasing the number of reference brains used to automatically label a human subject brain improves labeling accuracy with respect to manually assigned labels. Mindboggle software can provide confidence measures for labels based on probabilistic assignment of labels and could be applied to large databases of brain images. National Institutes of Health (U.S) ( grant R01 DC02852 ) 2010-10-08T19:38:48Z 2010-10-08T19:38:48Z 2005-10 2005-02 2010-09-03T16:07:00Z Article http://purl.org/eprint/type/JournalArticle 1471-2342 http://hdl.handle.net/1721.1/58996 BMC Medical Imaging. 2005 Oct 05;5(1):7 16202176 https://orcid.org/0000-0002-5312-6729 en http://dx.doi.org/10.1186/1471-2342-5-7 BMC Medical Imaging Creative Commons Attribution http://creativecommons.org/licenses/by/2.0 Klein et al.; licensee BioMed Central Ltd. application/pdf BioMed Central Ltd BioMed Central Ltd |
| spellingShingle | Klein, Arno Mensh, Brett Ghosh, Satrajit S. Tourville, Jason Hirsch, Joy Mindboggle: Automated brain labeling with multiple atlases |
| title | Mindboggle: Automated brain labeling with multiple atlases |
| title_full | Mindboggle: Automated brain labeling with multiple atlases |
| title_fullStr | Mindboggle: Automated brain labeling with multiple atlases |
| title_full_unstemmed | Mindboggle: Automated brain labeling with multiple atlases |
| title_short | Mindboggle: Automated brain labeling with multiple atlases |
| title_sort | mindboggle automated brain labeling with multiple atlases |
| url | http://hdl.handle.net/1721.1/58996 https://orcid.org/0000-0002-5312-6729 |
| work_keys_str_mv | AT kleinarno mindboggleautomatedbrainlabelingwithmultipleatlases AT menshbrett mindboggleautomatedbrainlabelingwithmultipleatlases AT ghoshsatrajits mindboggleautomatedbrainlabelingwithmultipleatlases AT tourvillejason mindboggleautomatedbrainlabelingwithmultipleatlases AT hirschjoy mindboggleautomatedbrainlabelingwithmultipleatlases |