Macaca mulatta structural and diffusion weighted MRI data

<p>&nbsp;</p> <p>The&nbsp;AMU dataset includes structural&nbsp;and diffusion weighted MRI data from 4 <em>Macaca mulatta</em>&nbsp;monkeys.</p> <p>The data is provided both as a directory structure compressed as <code>all_the_data.zip</code>, and as individual files. The correspondence between the directory structure and the individual files is contained in the file <code>tree.json</code>. The bash command <code>source unflatten.sh</code> can be used to convert the individual files into the original directory structure.</p> <p><strong>Sample Description</strong></p> <ul> <li>Sample size: 4</li> <li>Age distribution: 7-8 years</li> <li>Weight distribution: 7.5-12.5 kgs</li> <li>Sex distribution: 3 male, 1 female</li> </ul> <p>Click&nbsp;<a href="http://fcon_1000.projects.nitrc.org/indi/PRIME/files/amu.csv">here</a>&nbsp;for the full sample description (.csv download)</p> <p><strong>Scan Procedures and Parameters</strong></p> <p><em>Ethics approval:</em>&nbsp;obtained at local Ethics Committee</p> <p><em>Animal care and housing:</em>&nbsp;At Institut de Neurosciences de La Timone</p> <p><em>Any applicable training:</em>&nbsp;N/A</p> <p><strong>Scanning preparations</strong></p> <p><em>Anesthesia procedures:</em>&nbsp;Isoflurane</p> <p><em>Time between anesthesia and scanning:</em>&nbsp;None- anesthesia was performed and monitored during scanning.</p> <p><em>Head fixation:</em>&nbsp;Kopf frame and ear bars</p> <p><em>Position in scanner and procedure used:</em>&nbsp;Sphinx position.&nbsp;<strong>Fiducial marker placed on right side.</strong></p> <p><em>Contrast agent:</em>&nbsp;None</p> <p><strong>During scanning</strong></p> <p><em>Physiological monitoring:</em>&nbsp;Heart rate, respiration</p> <p><em>Additional procedures:</em>&nbsp;Ventilation</p> <p><strong>Scan sequences</strong></p> <ul> <li>Scanner type: Siemens Prisma 3T</li> <li>Head coil: Body transmit array, 11cm loop receiving coil</li> <li>Optimization of the magnetic field prior to data acquisition: Automatic B0 shimming procedures from Siemens</li> <li>&nbsp;</li> <li>Diffusion-weighted: <ul> <li>Diffusion SE-EPI sequence</li> <li>Voxel resolution: 1 x 1 x 1 mm</li> <li>TE: 87.6ms</li> <li>TR: 7520ms</li> <li>64b1000</li> <li>6b300</li> <li>5b0</li> <li>Two repetitions with reversed phase encoding direction</li> </ul> </li> <li>Structural: <ul> <li>T1 <ul> <li>MPRAGE sequence</li> <li>Voxel resolution: 0.8 x 0.8 x 0.8 mm</li> <li>TE: 2.04ms</li> <li>TR: 2900ms</li> <li>TI: 1000ms</li> </ul> </li> <li>T2 <ul> <li>3D SPACE sequence</li> <li>Voxel resolution: 0.8 x 0.8 x 0.8mm</li> <li>TE: 561ms</li> <li>TR: 3200ms</li> </ul> </li> <li>QSM <ul> <li>3D GRE sequence</li> <li>Voxel resolution: 0.93 x 0.93 x 1mm</li> <li>TE: 2.7-42ms</li> <li>TR: 45ms</li> </ul> </li> </ul> </li> </ul> <p><strong>Personnel</strong></p> <ul> <li>Thomas Brochier¹</li> <li>Pascal Belin¹</li> <li>Fr&eacute;d&eacute;ric Chavanne¹</li> <li>Lionel Velly¹</li> <li>Cl&eacute;mentine Bodin¹</li> <li>Luc Renaud^1,2</li> <li>Marc Martin^1,2</li> <li>Laurence Boes^1,2</li> <li>Julien Sein¹</li> <li>Bruno Nazarian¹</li> <li>Jean-Luc Anton¹</li> </ul> <p>¹Institut de Neurosciences de la Timone (INT), UMR7289 CNRS &amp; Aix-Marseille Universit&eacute;, Marseille, France<br> ²Centre d&rsquo;Exploration Fonctionnelle et de Formation en Primatologie (CE2F-PRIM), UMS5737 CNRS &amp; Aix-Marseille Universit&eacute;, Marseille, France</p> <p><strong>Acknowledgements</strong></p> <p>We gratefully acknowledge the support of French France-Life Imaging (FLI) and Infrastructures en Biologie Sant&eacute; et Agronomie (IBISA)</p> <p><strong>Funding</strong></p> <p>Project PRIMAVOICE, PI Belin, French Agence Nationale de la Recherche</p> <p>Detailed information can be found at&nbsp;<a href="http://fcon_1000.projects.nitrc.org/indi/PRIME/amu.html">http://fcon_1000.projects.nitrc.org/indi/PRIME/amu.html</a>.</p> <p><strong>Citation</strong></p> <ul> <li>Brochier, T., Belin, P., Chavanne, F., Velly, L., Bodin, C., Renaud, L., Martin, M., Boes, L., Sein, J., Nazarian, B., &amp; Anton, J.-L. (2019). Macaca mulatta structural and diffusion weighted MRI data [Data set]. Zenodo. <a href="https://doi.org/10.5281/ZENODO.3402456">https://doi.org/10.5281/ZENODO.3402456</a>.</li> <li>Milham, M. P., Ai, L., Koo, B., Xu, T., Amiez, C., Balezeau, F., &hellip; Schroeder, C. E. (2018). An Open Resource for Non-human Primate Imaging. Neuron, 100(1), 61&ndash;74.e2. <a href="https://doi.org/10.1016/j.neuron.2018.08.039">https://doi.org/10.1016/j.neuron.2018.08.039</a>.</li> </ul>