{"id":198,"date":"2016-06-09T08:03:00","date_gmt":"2016-06-09T08:03:00","guid":{"rendered":"https:\/\/mri.sbollmann.net\/?p=198"},"modified":"2020-06-14T08:05:48","modified_gmt":"2020-06-14T08:05:48","slug":"turbo-spin-echo-tse-t2-weighted-average-7t-model","status":"publish","type":"post","link":"https:\/\/mri.sbollmann.net\/index.php\/2016\/06\/09\/turbo-spin-echo-tse-t2-weighted-average-7t-model\/","title":{"rendered":"Turbo Spin Echo (TSE) T2-weighted average 7T model"},"content":{"rendered":"\n<figure class=\"wp-block-image size-large\"><img loading=\"lazy\" decoding=\"async\" width=\"1131\" height=\"561\" src=\"https:\/\/i0.wp.com\/mri.sbollmann.net\/wp-content\/uploads\/2020\/06\/tse.png?fit=750%2C372&amp;ssl=1\" alt=\"\" class=\"wp-image-213\" srcset=\"https:\/\/mri.sbollmann.net\/wp-content\/uploads\/2020\/06\/tse.png 1131w, https:\/\/mri.sbollmann.net\/wp-content\/uploads\/2020\/06\/tse-300x149.png 300w, https:\/\/mri.sbollmann.net\/wp-content\/uploads\/2020\/06\/tse-1024x508.png 1024w, https:\/\/mri.sbollmann.net\/wp-content\/uploads\/2020\/06\/tse-768x381.png 768w\" sizes=\"auto, (max-width: 1131px) 100vw, 1131px\" \/><\/figure>\n\n\n\n<p>For the ISMRM 2016 we build a minimum deformation average (MDA) from a population of subjects based upon high resolution 7T MR imaging.<\/p>\n\n\n\n<p>View online and download the model in MINC or NiFTI format here (registered to <a href=\"https:\/\/mri.sbollmann.net\/index.php\/2016\/06\/09\/mp2rage-t1-weighted-average-7t-model\/\" target=\"_blank\" rel=\"noreferrer noopener\">MP2RAGE model<\/a>):<\/p>\n\n\n\n<ul class=\"wp-block-list\"><li><a rel=\"noreferrer noopener\" href=\"http:\/\/tissuestack.org\/desktop.html?ds=40&amp;plane=y&amp;x=26.775&amp;y=0.903&amp;z=-8.325&amp;zoom=8\" target=\"_blank\">View model in the browser via tissuestack.org<\/a><\/li><li><a rel=\"noreferrer noopener\" href=\"https:\/\/imaging.org.au\/uploads\/Human7T\/tseModelInMP2RAGEspaceCMACC_L15_hippocampus-TSE-7T-sym-mincanon_v0.8.mnc\" target=\"_blank\">Download mnc (423 MB)<\/a><\/li><li><a rel=\"noreferrer noopener\" href=\"https:\/\/imaging.org.au\/uploads\/Human7T\/tseModelInMP2RAGEspaceCMACC_L15_hippocampus-TSE-7T-sym-mincanon_v0.8.nii\" target=\"_blank\">Download nii (928 MB)<\/a><\/li><li>code: <ul><li><a rel=\"noreferrer noopener\" href=\"https:\/\/github.com\/CAISR\/volgenmodel-nipype\" target=\"_blank\">https:\/\/github.com\/CAISR\/volgenmodel-nipype<\/a><\/li><li><a href=\"https:\/\/github.com\/CAIsr\/cma\">https:\/\/github.com\/CAIsr\/cma<\/a><\/li><\/ul><\/li><\/ul>\n\n\n\n<ul class=\"wp-block-list\"><li>the raw TSE model in TSE space:<ul><li><a rel=\"noreferrer noopener\" href=\"http:\/\/tissuestack.org\/desktop.html?ds=38&amp;plane=y&amp;x=27.11&amp;y=-0.2&amp;z=0.2&amp;zoom=5\" target=\"_blank\">View model in the browser via tissuestack.org<\/a><\/li><li><a rel=\"noreferrer noopener\" href=\"https:\/\/imaging.org.au\/uploads\/Human7T\/tseModel_L15_hippocampus-TSE-7T-sym-mincanon_v0.8.mnc\" target=\"_blank\">Download mnc (646 MB)<\/a><\/li><li><a rel=\"noreferrer noopener\" href=\"https:\/\/imaging.org.au\/uploads\/Human7T\/tseModel_L15_hippocampus-TSE-7T-sym-mincanon_v0.8.nii\" target=\"_blank\">Download nii (1517 MB)<\/a><\/li><\/ul><\/li><\/ul>\n\n\n\n<figure class=\"wp-block-embed-youtube wp-block-embed is-type-video is-provider-youtube wp-embed-aspect-4-3 wp-has-aspect-ratio\"><div class=\"wp-block-embed__wrapper\">\n<iframe loading=\"lazy\" title=\"tseAtlas\" width=\"750\" height=\"563\" src=\"https:\/\/www.youtube.com\/embed\/swLpoetLqTc?feature=oembed\" frameborder=\"0\" allow=\"accelerometer; autoplay; encrypted-media; gyroscope; picture-in-picture\" allowfullscreen><\/iframe>\n<\/div><figcaption>Scrolling through the TSE model<\/figcaption><\/figure>\n\n\n\n<figure class=\"wp-block-embed-youtube wp-block-embed is-type-video is-provider-youtube wp-embed-aspect-16-9 wp-has-aspect-ratio\"><div class=\"wp-block-embed__wrapper\">\n<iframe loading=\"lazy\" title=\"tseAtlasMorph\" width=\"750\" height=\"422\" src=\"https:\/\/www.youtube.com\/embed\/RNBDYtsolGo?feature=oembed\" frameborder=\"0\" allow=\"accelerometer; autoplay; encrypted-media; gyroscope; picture-in-picture\" allowfullscreen><\/iframe>\n<\/div><figcaption>The iterative construction of the TSE model<\/figcaption><\/figure>\n\n\n\n<p>Citing this model: Bollmann, Steffen, Andrew Janke, Lars Marstaller, David Reutens, Kieran O\u2019Brien, and Markus Barth. \u201cTurbo Spin Echo average 7T model\u201d January 1, 2017.\u00a0<a rel=\"noreferrer noopener\" target=\"_blank\" href=\"http:\/\/dx.doi.org\/10.14264\/uql.2017.267\">doi:10.14264\/uql.2017.267<\/a><\/p>\n\n\n\n<h2 class=\"wp-block-heading\">Acquisition details<\/h2>\n\n\n\n<p>TSE: 26 (13 female, average age 26.8\u00b13.9) individuals were imaged using 3 repetitions of a 2D Turbo Spin Echo (TSE) sequence covering a slab orthogonally to the axis of the hippocampus with a resolution of 0.2&#215;0.2&#215;0.8mm, flip angle 134, TR 10.3s. Before the atlas creation, we averaged the three TSE acquisitions per participant to one dataset to increase SNR and reduce the amount of data to be processed. Then we resampled the TSE data to an isotropic voxel size of 0.4 mm.<\/p>\n\n\n\n<h2 class=\"wp-block-heading\">References describing this model:<\/h2>\n\n\n\n<p>Janke AL, O&#8217;Brien K, Bollmann S, Kober T, Marstaller L, Barth M. A 7T Human Brain Microstructure Atlas by Minimum Deformation Averaging at 300um. In 24th Annual ISMRM Scientific Meeting and Exhibition, Singapore. <a href=\"http:\/\/indexsmart.mirasmart.com\/ISMRM2016\/PDFfiles\/1165.html\" target=\"_blank\" rel=\"noreferrer noopener\">http:\/\/indexsmart.mirasmart.com\/ISMRM2016\/PDFfiles\/1165.html<\/a><\/p>\n","protected":false},"excerpt":{"rendered":"<p>For the ISMRM 2016 we build a minimum deformation average (MDA) from a population of subjects based upon high resolution 7T MR imaging. View online and download the model in MINC or NiFTI format here (registered to MP2RAGE model): View model in the browser via tissuestack.org Download mnc (423 MB) [&hellip;]<\/p>\n","protected":false},"author":1,"featured_media":213,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[20,21,15],"tags":[],"class_list":["post-198","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-conferences","category-minimum-deformation-averaging","category-ultra-high-field"],"jetpack_featured_media_url":"https:\/\/mri.sbollmann.net\/wp-content\/uploads\/2020\/06\/tse.png","_links":{"self":[{"href":"https:\/\/mri.sbollmann.net\/index.php\/wp-json\/wp\/v2\/posts\/198","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/mri.sbollmann.net\/index.php\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/mri.sbollmann.net\/index.php\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/mri.sbollmann.net\/index.php\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/mri.sbollmann.net\/index.php\/wp-json\/wp\/v2\/comments?post=198"}],"version-history":[{"count":2,"href":"https:\/\/mri.sbollmann.net\/index.php\/wp-json\/wp\/v2\/posts\/198\/revisions"}],"predecessor-version":[{"id":216,"href":"https:\/\/mri.sbollmann.net\/index.php\/wp-json\/wp\/v2\/posts\/198\/revisions\/216"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/mri.sbollmann.net\/index.php\/wp-json\/wp\/v2\/media\/213"}],"wp:attachment":[{"href":"https:\/\/mri.sbollmann.net\/index.php\/wp-json\/wp\/v2\/media?parent=198"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/mri.sbollmann.net\/index.php\/wp-json\/wp\/v2\/categories?post=198"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/mri.sbollmann.net\/index.php\/wp-json\/wp\/v2\/tags?post=198"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}