DeepSlice: rapid fully automatic registration of mouse brain imaging to a volumetric atlas
Abstract Registration of data to a common frame of reference is an essential step in the analysis and integration of diverse neuroscientific data. To this end, volumetric brain atlases enable histological datasets to be spatially registered and analyzed, yet accurate registration remains expertise-d...
| Main Authors: | , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Nature Portfolio
2023-09-01
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| Series: | Nature Communications |
| Online Access: | https://doi.org/10.1038/s41467-023-41645-4 |
| _version_ | 1797558682458783744 |
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| author | Harry Carey Michael Pegios Lewis Martin Chris Saleeba Anita J. Turner Nicholas A. Everett Ingvild E. Bjerke Maja A. Puchades Jan G. Bjaalie Simon McMullan |
| author_facet | Harry Carey Michael Pegios Lewis Martin Chris Saleeba Anita J. Turner Nicholas A. Everett Ingvild E. Bjerke Maja A. Puchades Jan G. Bjaalie Simon McMullan |
| author_sort | Harry Carey |
| collection | DOAJ |
| description | Abstract Registration of data to a common frame of reference is an essential step in the analysis and integration of diverse neuroscientific data. To this end, volumetric brain atlases enable histological datasets to be spatially registered and analyzed, yet accurate registration remains expertise-dependent and slow. In order to address this limitation, we have trained a neural network, DeepSlice, to register mouse brain histological images to the Allen Brain Common Coordinate Framework, retaining registration accuracy while improving speed by >1000 fold. |
| first_indexed | 2024-03-10T17:33:56Z |
| format | Article |
| id | doaj.art-cbb9c05b5f5e48a4be05e23a60c1f100 |
| institution | Directory Open Access Journal |
| issn | 2041-1723 |
| language | English |
| last_indexed | 2024-03-10T17:33:56Z |
| publishDate | 2023-09-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Nature Communications |
| spelling | doaj.art-cbb9c05b5f5e48a4be05e23a60c1f1002023-11-20T09:55:21ZengNature PortfolioNature Communications2041-17232023-09-0114111110.1038/s41467-023-41645-4DeepSlice: rapid fully automatic registration of mouse brain imaging to a volumetric atlasHarry Carey0Michael Pegios1Lewis Martin2Chris Saleeba3Anita J. Turner4Nicholas A. Everett5Ingvild E. Bjerke6Maja A. Puchades7Jan G. Bjaalie8Simon McMullan9Macquarie Medical School, Faculty of Medicine, Health & Human Sciences, Macquarie UniversityMacquarie Medical School, Faculty of Medicine, Health & Human Sciences, Macquarie UniversityOpenBenchMacquarie Medical School, Faculty of Medicine, Health & Human Sciences, Macquarie UniversityMacquarie Medical School, Faculty of Medicine, Health & Human Sciences, Macquarie UniversitySchool of Psychology, University of SydneyDepartment of Molecular Medicine, Institute of Basic Medical Sciences, University of OsloDepartment of Molecular Medicine, Institute of Basic Medical Sciences, University of OsloDepartment of Molecular Medicine, Institute of Basic Medical Sciences, University of OsloMacquarie Medical School, Faculty of Medicine, Health & Human Sciences, Macquarie UniversityAbstract Registration of data to a common frame of reference is an essential step in the analysis and integration of diverse neuroscientific data. To this end, volumetric brain atlases enable histological datasets to be spatially registered and analyzed, yet accurate registration remains expertise-dependent and slow. In order to address this limitation, we have trained a neural network, DeepSlice, to register mouse brain histological images to the Allen Brain Common Coordinate Framework, retaining registration accuracy while improving speed by >1000 fold.https://doi.org/10.1038/s41467-023-41645-4 |
| spellingShingle | Harry Carey Michael Pegios Lewis Martin Chris Saleeba Anita J. Turner Nicholas A. Everett Ingvild E. Bjerke Maja A. Puchades Jan G. Bjaalie Simon McMullan DeepSlice: rapid fully automatic registration of mouse brain imaging to a volumetric atlas Nature Communications |
| title | DeepSlice: rapid fully automatic registration of mouse brain imaging to a volumetric atlas |
| title_full | DeepSlice: rapid fully automatic registration of mouse brain imaging to a volumetric atlas |
| title_fullStr | DeepSlice: rapid fully automatic registration of mouse brain imaging to a volumetric atlas |
| title_full_unstemmed | DeepSlice: rapid fully automatic registration of mouse brain imaging to a volumetric atlas |
| title_short | DeepSlice: rapid fully automatic registration of mouse brain imaging to a volumetric atlas |
| title_sort | deepslice rapid fully automatic registration of mouse brain imaging to a volumetric atlas |
| url | https://doi.org/10.1038/s41467-023-41645-4 |
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