Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
2
datasets available to search
ShareScore release 0.9.0
Dataset results
2 results for “Macaca mulatta; Macaca fascicularis”
Macaca mulatta and Macaca fascicularis anatomical and functional MRI data
<p> </p> <p>The ION dataset includes anatomical, field map, and fMRI data from 8 monkeys: 4 <em>Macaca mulatta</em> and 4 <em>Macaca fascicularis.</em></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>Scanner Specifications</strong></p> <ul> <li>Siemens Tim Trio 3T whole-body scanner with or without head-only gradient insert (Siemens AC88)</li> <li>8-channel phased-array transceiver coils</li> <li>Optimization of the magnetic field prior to data acquisition: Manual shimming</li> </ul> <p><strong>Sample Description</strong></p> <ul> <li>Sample size: 8</li> <li>Age distribution: 3.80-5.99 years</li> <li>Weight distribution: 5.0-10.2 kg</li> <li>Sex distribution: 7 male, 1 female</li> </ul> <p>Click <a href="http://fcon_1000.projects.nitrc.org/indi/PRIME/files/ion.csv">here</a> for the full sample description (.csv download)</p> <p><strong>Scan Procedures and Parameters</strong></p> <p><em>Ethics approval:</em> All experimental procedures for nonhuman primate research were approved by the Institutional Animal Care and Use Committee in the Institute of Neuroscience and by the Biomedical Research Ethics Committee, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, and conformed to National Institutes of Health guidelines for the humane care and use of laboratory animals.</p> <p><em>Animal care and housing:</em> Animals were housed in single cage</p> <p><em>Any applicable training:</em> none</p> <p><strong>Scanning preparations</strong></p> <p><em>Anesthesia procedures:</em> Anesthesia of the animals was inducted with an intramuscular injection of a cocktail of dexmedetomidine (18 - 30 µg/kg) and midazolam (0.2 - 0.3 mg/kg), supplemented with atropine sulfate (0.05 mg/kg). After intubation, anesthesia was maintained using the lowest possible concentration of isoflurane gas via a MRI-compatible ventilator.</p> <p><em>Time between anesthesia and scanning:</em> Scanning lasted about 1.5 hours after induction.</p> <p><em>Head fixation:</em> Custom-built MRI-compatible stereotaxic frame</p> <p><em>Position in scanner and procedure used:</em> Sphinx position</p> <p><em>Contrast agent:</em> none</p> <p><strong>During scanning</strong></p> <p><em>Physiological monitoring:</em> Physiological parameters including blood oxygenation, ECG, rectal temperature, respiration rate and end-tidal CO<sub>2</sub> were monitored. Oxygen saturation was kept over 95%.</p> <p><em>Additional procedures:</em> Animals were ventilated by a MRI-compatible ventilator. Body temperature was kept constant using hot water blanket.</p> <p><strong>Scan sequences</strong></p> <ul> <li>Resting-state: <ul> <li>Gradient-echo EPI</li> <li>TR: 2000ms</li> <li>TE: 29ms</li> <li>Flip angle: 77°</li> <li>Field of view: 96 x 96 mm</li> <li>In plane resolution: 1.5 x 1.5 mm</li> <li>Slices number: 32</li> <li>Slice thickness: 2.5mm</li> <li>GRAPPA factor: 2</li> <li>Measurements: 200</li> <li>Slice direction: Coronal slice</li> </ul> </li> <li>Structural: <ul> <li>T1 MPRAGE Sequence</li> <li>Voxel resolution: 0.5 x 0.5 x 0.5 mm</li> <li>TE: 3.12ms</li> <li>TR: 2500ms</li> <li>TI: 1100ms</li> <li>Flip angle: 9°</li> <li>Slice direction: 44 sagittal slices</li> <li>Number of averages: 2</li> </ul> </li> <li>Additional: <ul> <li>Field map: a pair of gradient echo images</li> <li>TE1: 4.22ms</li> <li>TE2: 6.68ms</li> <li>Orientation and resolution: same as resting-state images</li> <li>Intended for EPI distortion correction</li> </ul> </li> </ul> <p><strong>Publications</strong></p> <ul> <li>Lv, Q., Yang, L., Li, G., Wang, Z., Shen, Z., Yu, W., Jiang, Q., Hou, B., Pu, J., Hu, H., & Wang, Z. (2016). Large-Scale Persistent Network Reconfiguration Induced by Ketamine in Anesthetized Monkeys: Relevance to Mood Disorders. Biological Psychiatry, 79(9), 765–775. <a href="https://doi.org/10.1016/j.biopsych.2015.02.028">https://doi.org/10.1016/j.biopsych.2015.02.028</a></li> </ul> <p><strong>Personnel</strong></p> <p>Zheng Wang<sup>1</sup></p> <p><sup>1</sup>Institute of Neuroscience, Key Laboratory of Primate Neurobiology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China</p> <p><strong>Acknowledgements</strong></p> <p>The authors thank Drs. Lawrence Wald, Ravi Menon, John Gore, Franz Schmitt, Renate Jerecic, Thomas Benner, Kecheng Liu, Ignacio Vallines, and Hui Liu for their generous help and contribution to the construction of our custom-tuned gradient-insert (AC88) 3T MRI facility for nonhuman primate subjects.</p> <p><strong>Funding</strong></p> <ul> <li>Hundred Talent Program of Chinese Academy of Sciences (Technology) (Zheng Wang)</li> <li>Chinese 973 Program (2011CBA00400)</li> <li>The “Strategic Priority Research Program (B) of the Chinese Academy of Sciences (XDB02030004)</li> <li>The Outstanding Youth Grant (Hailan Hu)</li> </ul> <p>Detailed information can be found at <a href="http://fcon_1000.projects.nitrc.org/indi/PRIME/ion.html">http://fcon_1000.projects.nitrc.org/indi/PRIME/ion.html</a>.</p> <p><strong>Citation</strong> </p> <ul> <li>Wang, Z. (2019). Macaca mulatta and Macaca fascicularis anatomical and functional MRI data [Data set]. Zenodo. <a href="https://doi.org/10.5281/ZENODO.3402112">https://doi.org/10.5281/ZENODO.3402112</a>.</li> <li>Milham, M. P., Ai, L., Koo, B., Xu, T., Amiez, C., Balezeau, F., … Schroeder, C. E. (2018). An Open Resource for Non-human Primate Imaging. Neuron, 100(1), 61–74.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>
On following pages: 16. Arunachal Macaque (Macaca munzala); 17. Tibetan Macaque (Macaca thibetana); 18. Stump-tailed Macaque Macaca arctoides); 19. Long-tailed Macaque (Macaca fascicularis); 20. Rhesus Macaque (Macaca mulatta); 21. Japanese Macaque (Macaca fuscata); 22. Taiwanese Macaque (Macaca cyclopis). in Cercopithecidae
On following pages: 16. Arunachal Macaque (Macaca munzala); 17. Tibetan Macaque (Macaca thibetana); 18. Stump-tailed Macaque Macaca arctoides); 19. Long-tailed Macaque (Macaca fascicularis); 20. Rhesus Macaque (Macaca mulatta); 21. Japanese Macaque (Macaca fuscata); 22. Taiwanese Macaque (Macaca cyclopis).
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.