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Unfortunately, these techniques still suffer from a lack of dedicated and standardized neuroimaging tools, namely brain templates and descriptive atlases. Here, we present two rat brain MRI templates and their associated gray matter, white matter and cerebrospinal fluid probability maps, generated from ex vivo <jats:inline-formula><jats:alternatives><jats:tex-math>$${\\mathrm{T}}_2^ \\ast$$<\/jats:tex-math><mml:math xmlns:mml=\"http:\/\/www.w3.org\/1998\/Math\/MathML\">\n                  <mml:msubsup>\n                    <mml:mrow>\n                      <mml:mi>T<\/mml:mi>\n                    <\/mml:mrow>\n                    <mml:mrow>\n                      <mml:mn>2<\/mml:mn>\n                    <\/mml:mrow>\n                    <mml:mrow>\n                      <mml:mo>*<\/mml:mo>\n                    <\/mml:mrow>\n                  <\/mml:msubsup>\n                <\/mml:math><\/jats:alternatives><\/jats:inline-formula>-weighted images (90\u2009\u00b5m isotropic resolution) and in vivo T<jats:sub>2<\/jats:sub>-weighted images (150\u2009\u00b5m isotropic resolution). In association with these templates, we also provide both anatomical and functional 3D brain atlases, respectively derived from the merging of the Waxholm and Tohoku atlases, and analysis of resting-state functional MRI data. Finally, we propose a complete set of preclinical MRI reference resources, compatible with common neuroimaging software, for the investigation of rat brain structures and functions.<\/jats:p>","DOI":"10.1038\/s41467-019-13575-7","type":"journal-article","created":{"date-parts":[[2019,12,13]],"date-time":"2019-12-13T11:04:00Z","timestamp":1576235040000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":143,"title":["The SIGMA rat brain templates and atlases for multimodal MRI data analysis and visualization"],"prefix":"10.1038","volume":"10","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-4355-3329","authenticated-orcid":false,"given":"D. 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