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Dataset results
2 results for “MNI space”
Vascular Territory template and atlases in MNI space
<p><strong>Data</strong></p> <p>Sixteen subjects (mean age (sd): 69.6 (8.2); 37.5% female) were recruited to generate a high-resolution template. The cohort consists of twelve stroke-free, non-demented patients with the sporadic form of cerebral amyloid angiopathy (CAA), and similarly-aged healthy controls (n=4). Each participant underwent high-resolution MRI with a Siemens Magnetom Prisma 3T scanner (using a 32-channel head coil) as part of a separate study. The standardized protocol included a Multiecho T1-weighted (voxel size: 1x1x1 mm<sup>3</sup>; Repetition Time [TR]: 2510 ms), a 3D-FLAIR (voxel size: 0.9x0.9x0.9 mm<sup>3</sup>; TR: 5000 ms; TE: 356 ms), and a T2-weighted Turbo Spin Echo (voxel size: 0.5x0.5x2.0 mm<sup>3</sup>; TR: 7500 ms; TE: 84 ms) sequence. Scans were manually assessed to ensure no gross pathology was present, such as hemorrhage or silent brain infarcts.</p> <p><strong>Template and territorial map creation</strong></p> <p>We employed Advanced Normalization Tools (ANTs) for image processing (Avants et al., 2010, 2011) for creating a brain template based on multimodal information using T1, T2 and 3D-FLAIR sequences. After template creation, we smoothed the resulting templates (FSL; Gaussian smoothing, sigma = 1) and registered the resulting templates into MNI space, again using ANTs (Avants et al., 2011).</p> <p>Vascular territories were outlined on the right hemisphere in the T1-weighted atlas image and contain anatomically validated ACA, MCA, and PCA territories supratentorially. The right hemispheric map was then mirrored onto the left hemisphere to create a full-brain vascular territory map, which was manually assessed and corrected where necessary.</p> <p> </p> <p>For more details, please see the original publication that utilized the template. If you utilize this template, please also cite</p> <p>Schirmer, Markus D., et al. "Spatial signature of white matter hyperintensities in stroke patients." <em>Frontiers in neurology</em> 10 (2019): 208.</p> <p><a href="https://doi.org/10.3389/fneur.2019.00208">https://doi.org/10.3389/fneur.2019.00208</a></p> <p> </p> <p><strong>Files</strong></p> <p><strong>FLAIR template</strong>: caa_flair_in_mni_template_smooth.nii.gz<br> <br> <strong>FLAIR template after brain extraction and intensity normalization</strong>: caa_flair_in_mni_template_smooth_brain_intres.nii.gz<br> <br> <strong>T1 template</strong>: caa_t1_in_mni_template_smooth.nii.gz 27.7 Mb<br> <br> <strong>T2 template</strong>: caa_t2_in_mni_template_smooth.nii.gz 27.7 Mb<br> <br> <strong>Vascular territory map</strong>: mni_vascular_territories.nii.gz</p>
Custom young-old population MNI-space MRI anatomical template
<p>Custom young-old population template derived from 50 younger (25 female; <em>M</em> = 22.02 years, <em>SD</em> = 3.13 years) and 50 older (25 female; <em>M</em> = 67.14 years, <em>SD</em> = 6.7 years) low-motion adults (mean framewise displacement =0.09).</p> <p>Structural MRI scans for these participants were acquired using a 3T GE Discovery MR750 MRI scanner with a 32 channel head coil at the Cornell Magnetic Resonance Imaging Facility in Ithaca, New York.</p> <p>Anatomical images for included template participants were affine registered to MNI space using <em>@toMNI_Awarp</em> before being non-linearly, iteratively aligned using <em>@toMNI_Qwarpar</em> using the AFNI toolbox (https://afni.nimh.nih.gov/).</p>
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.