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An in vivo MRI Template Set for Morphometry, Tissue Segmentation, and fMRI Localization in Rats
Over the last decade, several papers have focused on the construction of highly detailed mouse high field magnetic resonance image (MRI) templates via non-linear registration to unbiased reference spaces, allowing for a variety of neuroimaging applications such as robust morphometric analyses. Howev...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Research Foundation
2011
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3254174/ https://www.ncbi.nlm.nih.gov/pubmed/22275894 http://dx.doi.org/10.3389/fninf.2011.00026 |
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author | Valdés-Hernández, Pedro Antonio Sumiyoshi, Akira Nonaka, Hiroi Haga, Risa Aubert-Vásquez, Eduardo Ogawa, Takeshi Iturria-Medina, Yasser Riera, Jorge J. Kawashima, Ryuta |
author_facet | Valdés-Hernández, Pedro Antonio Sumiyoshi, Akira Nonaka, Hiroi Haga, Risa Aubert-Vásquez, Eduardo Ogawa, Takeshi Iturria-Medina, Yasser Riera, Jorge J. Kawashima, Ryuta |
author_sort | Valdés-Hernández, Pedro Antonio |
collection | PubMed |
description | Over the last decade, several papers have focused on the construction of highly detailed mouse high field magnetic resonance image (MRI) templates via non-linear registration to unbiased reference spaces, allowing for a variety of neuroimaging applications such as robust morphometric analyses. However, work in rats has only provided medium field MRI averages based on linear registration to biased spaces with the sole purpose of approximate functional MRI (fMRI) localization. This precludes any morphometric analysis in spite of the need of exploring in detail the neuroanatomical substrates of diseases in a recent advent of rat models. In this paper we present a new in vivo rat T2 MRI template set, comprising average images of both intensity and shape, obtained via non-linear registration. Also, unlike previous rat template sets, we include white and gray matter probabilistic segmentations, expanding its use to those applications demanding prior-based tissue segmentation, e.g., statistical parametric mapping (SPM) voxel-based morphometry. We also provide a preliminary digitalization of latest Paxinos and Watson atlas for anatomical and functional interpretations within the cerebral cortex. We confirmed that, like with previous templates, forepaw and hindpaw fMRI activations can be correctly localized in the expected atlas structure. To exemplify the use of our new MRI template set, were reported the volumes of brain tissues and cortical structures and probed their relationships with ontogenetic development. Other in vivo applications in the near future can be tensor-, deformation-, or voxel-based morphometry, morphological connectivity, and diffusion tensor-based anatomical connectivity. Our template set, freely available through the SPM extension website, could be an important tool for future longitudinal and/or functional extensive preclinical studies. |
format | Online Article Text |
id | pubmed-3254174 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2011 |
publisher | Frontiers Research Foundation |
record_format | MEDLINE/PubMed |
spelling | pubmed-32541742012-01-24 An in vivo MRI Template Set for Morphometry, Tissue Segmentation, and fMRI Localization in Rats Valdés-Hernández, Pedro Antonio Sumiyoshi, Akira Nonaka, Hiroi Haga, Risa Aubert-Vásquez, Eduardo Ogawa, Takeshi Iturria-Medina, Yasser Riera, Jorge J. Kawashima, Ryuta Front Neuroinform Neuroscience Over the last decade, several papers have focused on the construction of highly detailed mouse high field magnetic resonance image (MRI) templates via non-linear registration to unbiased reference spaces, allowing for a variety of neuroimaging applications such as robust morphometric analyses. However, work in rats has only provided medium field MRI averages based on linear registration to biased spaces with the sole purpose of approximate functional MRI (fMRI) localization. This precludes any morphometric analysis in spite of the need of exploring in detail the neuroanatomical substrates of diseases in a recent advent of rat models. In this paper we present a new in vivo rat T2 MRI template set, comprising average images of both intensity and shape, obtained via non-linear registration. Also, unlike previous rat template sets, we include white and gray matter probabilistic segmentations, expanding its use to those applications demanding prior-based tissue segmentation, e.g., statistical parametric mapping (SPM) voxel-based morphometry. We also provide a preliminary digitalization of latest Paxinos and Watson atlas for anatomical and functional interpretations within the cerebral cortex. We confirmed that, like with previous templates, forepaw and hindpaw fMRI activations can be correctly localized in the expected atlas structure. To exemplify the use of our new MRI template set, were reported the volumes of brain tissues and cortical structures and probed their relationships with ontogenetic development. Other in vivo applications in the near future can be tensor-, deformation-, or voxel-based morphometry, morphological connectivity, and diffusion tensor-based anatomical connectivity. Our template set, freely available through the SPM extension website, could be an important tool for future longitudinal and/or functional extensive preclinical studies. Frontiers Research Foundation 2011-11-24 /pmc/articles/PMC3254174/ /pubmed/22275894 http://dx.doi.org/10.3389/fninf.2011.00026 Text en Copyright © 2011 Valdés-Hernández, Sumiyoshi, Nonaka, Haga, Aubert-Vásquez, Ogawa, Iturria-Medina, Riera and Kawashima. http://www.frontiersin.org/licenseagreement This is an open-access article subject to a non-exclusive license between the authors and Frontiers Media SA, which permits use, distribution and reproduction in other forums, provided the original authors and source are credited and other Frontiers conditions are complied with. |
spellingShingle | Neuroscience Valdés-Hernández, Pedro Antonio Sumiyoshi, Akira Nonaka, Hiroi Haga, Risa Aubert-Vásquez, Eduardo Ogawa, Takeshi Iturria-Medina, Yasser Riera, Jorge J. Kawashima, Ryuta An in vivo MRI Template Set for Morphometry, Tissue Segmentation, and fMRI Localization in Rats |
title | An in vivo MRI Template Set for Morphometry, Tissue Segmentation, and fMRI Localization in Rats |
title_full | An in vivo MRI Template Set for Morphometry, Tissue Segmentation, and fMRI Localization in Rats |
title_fullStr | An in vivo MRI Template Set for Morphometry, Tissue Segmentation, and fMRI Localization in Rats |
title_full_unstemmed | An in vivo MRI Template Set for Morphometry, Tissue Segmentation, and fMRI Localization in Rats |
title_short | An in vivo MRI Template Set for Morphometry, Tissue Segmentation, and fMRI Localization in Rats |
title_sort | in vivo mri template set for morphometry, tissue segmentation, and fmri localization in rats |
topic | Neuroscience |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3254174/ https://www.ncbi.nlm.nih.gov/pubmed/22275894 http://dx.doi.org/10.3389/fninf.2011.00026 |
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