University of Bordeaux

The MADI@700 dataset includes anatomical and DTI sequences from 9 macaques.

Usage Agreement

Creative Commons – Attribution (CC-BY) - Least restrictive data sharing policy.

Species

Macaca fascicularis

Scanner Specifications

• Scanner type: 3T Prisma Siemens
• Coil: manufacturer’s body coil for transmission and 64-channel head coil for signal reception

Sample Description

• Sample size: 9
• Age distribution: 3-23 years
• Weight distribution: 2.5-11.5 kg
• Sex distribution: 5 male, 4 female

Click here for the full sample description (.csv)

Scan Procedures and Parameters

Ethics approval: Experiments were approved by the Institutional Animal Care and Use Committee of Bordeaux (CEEA-50, France) and the French Ministry of Higher Education and Research (project numbers APAFIS#26048-2020061216228969-v5 and APAFIS#25587-2020052908471774-v4) in accordance with the European Union directive of 22 September 2010 (2010/63/EU) on the protection of animals used for scientific purposes.

Animal care and housing: Animals were housed in groups whenever possible, in enclosures designed according to the European directive 2010/63/EU in the non-human primate facility of the Institute of Neurodegenerative Diseases (CNRS UMR5293, University of Bordeaux, animal experimentation registration number D33063268). Environmental enrichment included background music, foraging toys, and cognitive games performed on a touchscreen system intermittently accessible from their housing enclosure.

Any applicable training: N/A

Scanning preparations

Anesthesia procedures:

• Anatomical MRI sessions: ketamine (10 mg/kg, IM) and xylazine (1 mg/kg, IM)
• Diffusion MRI sessions: isoflurane (1-3% mixed with pure oxygen)

Time between anesthesia and scanning:

• Anatomical MRI sessions: 30 min
• Diffusion MRI sessions: N/A (anesthesia maintained during the acquisition)

Duration of scanning:

• Anatomical MRI sessions: 1h 12min
• Diffusion MRI sessions: 2h 36min

Head fixation: None. Head maintained straight in the MRI coil using a shape memory head support (MOLDCARE head cushion, 20 x 45 cm, Alcare)

Position in scanner and procedure used: Supine

Contrast agent: None

During Scanning

Physiological monitoring: During all acquisitions, we monitored heart rate and oxygen saturation using an MRI-compatible pulse oximeter (Model 7500, Nonin Medical), and respiratory rate using the manufacturer’s respiratory belt

Additional procedures: N/A

Scan sequences

Click here and here, to download scan parameters:

• Scanner type: Siemens Prisma 3T
• Head coil: manufacturer’s body coil for transmission and 64-channel head coil for signal reception
• Optimization of the magnetic field prior to data acquisition: Automatic B0 shimming procedures from Siemens


• Diffusion-weighted:
• Diffusion 3D spin echo segmented EPI sequence
• Voxel resolution 0.7 x 0.7 x 0.7 mm
• TE 64 ms
• TR 700 ms
• 4 segments
• 32 b1000
• 1 b0
• Two repetitions with reversed phase encoding direction
• Anatomical:
• T1
• 3DMPRAGE sequence
• Voxel resolution: 0.5 x 0.5 x 0.5 mm
• TE: 2.32 ms
• TR: 2000 ms
• TI: 1000 ms
• T2
• 3D SPACE sequence
• Voxel resolution: 0.5 x 0.5 x 0.5mm
• TE: 384 ms
• TR: 3200 ms

Personnel

• Alex Valcourt Caron ¹
• Nadège Corbin ^2,3
• Adrien Boissenin ⁴
• Ankur Gupta ⁴
• Tho-Hai Nguyen ⁴
• Serge Anandra ⁵
• Sylvain Miraux ^2,3,5
• Maxime Descoteaux ^1,3
• Laurent Petit ^3,4
• Fabien B Wagner ⁴

1. Sherbrooke Connectivity Imaging Laboratory, Computer Science Department, Université de Sherbrooke, Sherbrooke, QC, Canada
2. Univ. Bordeaux, CNRS, CRMSB, UMR 5536, F-33000 Bordeaux, France
3. IRP OpTeam, CNRS Biologie, France - Université de Sherbrooke, Canada
4. Univ. Bordeaux, CNRS, IMN, UMR 5293, F-33000 Bordeaux, France
5. Biomedical Imaging platform pIBIO, UAR3767, CNRS, Bordeaux, France 

Acknowledgements

This research was enabled in part by support provided by Calcul Québec (calculquebec.ca) and the Digital Research Alliance of Canada (alliancecan.ca).

Funding

This work was supported by the Bordeaux Neurocampus junior chair programme co-funded by the Région Nouvelle-Aquitaine and the University of Bordeaux Initiative of Excellence (IdEx) (F.B.W., Neurocampus junior chair), and the European Union’s Horizon Europe research and innovation programme under European Research Council (ERC) Starting Grant agreement N° 101040391 (F.B.W., MEMOPROSTHETICS).

Downloads

Click here to download the data. Users will first be prompted to log on to NITRC and will need to register with the 1000 Functional Connectomes Project website on NITRC to gain access to the PRIME-DE datasets.