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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...

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Autores principales: Valdés-Hernández, Pedro Antonio, Sumiyoshi, Akira, Nonaka, Hiroi, Haga, Risa, Aubert-Vásquez, Eduardo, Ogawa, Takeshi, Iturria-Medina, Yasser, Riera, Jorge J., Kawashima, Ryuta
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Research Foundation 2011
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.
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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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