Université de Lyon - CarMeN Laboratory
The dataset includes data from structural, DWI, perfusion acquisitions, and PET scan of two radiotracers, for 20 monkeys.
Usage Agreement
Custom Data Usage Agreement (DUA) - Users must complete a data usage agreement (DUA) prior to gaining access to the data.
Species
Macaca Fascicularis
Sample Description
- Sample size: 20
- Age distribution: 5-7
- Weight distribution: 5-10 kg
- Sex distribution: All male
Click here for the full sample description (.csv)
Phenotypic Assessments
Scan Procedures and Parameters
Ethics approval: Project authorized by the French Ministry for Higher Education and Research (APAFIS#4702 and 8901) in accordance with the French transposition texts of Directive 2010/63/UE, based on ethical evaluation by the Animal Welfare Body of Cynbiose, the Ethics Committees of VetAgro-Sup and the French Committee on the Ethics of Experiments in Animals (C2EA) CELYNE registered at the national level as C2EA number 42.
Scanning preparations
Anesthesia procedures: Anaesthesia by IM injection of ketamine (4 mg/kg; KetamineVR 1000, Virbac, France) and midazolam (1.3 mg/kg; MidazolamVR 5 mg/ml., Mylan, France), Sevoflurane (1%, variable depending on the animal's anaesthetic depth; SevoFloVR, Abbott France) maintained anaesthesia during acquisition.
Time between anesthesia and scanning: 90 minutes
Position in scanner and procedure used: head-first supine
During scanning
Physiological monitoring: Animals were intubated and monitored through heart and respiratory rate, ET-CO2, systolic, diastolic and mean arterial pressure, oxygen saturation and body temperature.
Scan sequences
Scanner type: fully integrated hybrid Biograph mMR PET-MRI scanner 3T with a 6-channel phased array head and two 110mm loop-coils positioned on each side to optimize signal-to-noise ratio. All acquisitions were achieved at CERMEP (affiliations: INSERM, CNRS, Univ. Claude Bernard Lyon 1, Hospices Civils de Lyon, France).
MRI parameters:
| Sequences | Years | Pulse Sequence | Acquisition Type | Echo Time (s) | Nb Echo Time | Repetition Time (s) | Flip Angle (°) | Pixel Bandwidth (Hz) | Acquisition Matrix | Pixel Spacing (mm) |
|---|---|---|---|---|---|---|---|---|---|---|
| T1w | 2016 / 2017 / 2019 | MPRAGE | 3D | 0.00421 | 1 | 2.65 | 9 | 90 | 256 x 256 | 0.62 x 0.62 |
| T2starw | 2016 / 2017 | GR | 3D | 0.00445 | 0.0043* | 16 | 12** | 0.205 | 0.147** | 20 | 219 | 128 x 128 | 256 x 256** | 1.0 x 1.0 |
| 2019 | GR | 3D | 0.00445 | 16 | 0.205 | 25 | 220 | 128 x 128 | 1.0 x 1.0 | |
| T2w | 2016 | SE | 2D | 0.0099 | 32 | 6.46 | 3.23** | 180 | 262 | 64 x 64 | 128 x 128** | 2.0 x 2.0 |
| 2017 | SE | 2D | 0.0099 | 32 | 7.11 | 180 | 262 | 64 x 64 | 2.0 x 2.0 | |
| 2019 | SE | 2D | 0.0099 | 32 | 7.11 | 180 | 260 | 64 x 64 | 2.0 x 2.0 | |
| FLAIR | 2016 / 2017 | IR | 3D | 0.419 | 1 | 5 | 120 | 554 | 192 x 192 | 0.42 x 0.42 |
| 2019 | IR | 3D | 0.418 | 1 | 5 | 120 | 555 | 192 x 192 | 0.42 x 0.42 | |
| TOF | 2016 / 2017 | GR | 3D | 0.00357 | 0.00359** | 1 | 0.0212 | 20 | 243 | 448 x 220 | 0.45 x 0.45 |
| 2019 | GR | 3D | 0.00357 | 1 | 0.022 | 20 | 245 | 448 x 220 | 0.45 x 0.45 | |
| T1map-FAx | 2016 / 2017 | GR | 3D | 0.0025 | 1 | 0.0052 | 5, 10, 15, 25 | 401 | 64 x 64 | 2.0 x 2.0 |
| 2019 | GR | 3D | 0.0025 | 1 | 0.0052 | 5, 10, 15, 25 | 400 | 64 x 64 | 2.0 x 2.0 | |
| dwi | 2016 / 2017 | DWI | 2D | 0.068 | 1 | 11.2 | 180 | 898 | 96 x 96 | 1.33 x 1.33 |
| 2019 | DWI | 2D | 0.057 | 1 | 6.65 | 180 | 965 | 96 x 96 | 1.33 x 1.33 | |
| dce | 2016 / 2017 | GR | 3D | 0.0025 | 1 | 0.0052 | 25 | 401 | 64 x 64 | 2.0 x 2.0 |
| 2019 | GR | 3D | 0.0025 | 1 | 0.0052 | 25 | 400 | 64 x 64 | 2.0 x 2.0 | |
| dsc | 2016 | EPI | 2D | 0.017 | 1 | 1.5 | 90 | 1698 | 64 x 64 | 2.0 x 2.0 |
| 2017 | EPI | 2D | 0.017 | 1 | 1 | 90 | 1698 | 64 x 64 | 2.0 x 2.0 | |
| 2019 | EPI | 2D | 0.017 | 1 | 1.04 | 90 | 1700 | 64 x 64 | 2.0 x 2.0 |
GR: Gradient Echo; SE: Spin Echo; IR: Inversion Recovery; DWI: Diffusion Weighted Imaging; EPI: Echo Planar Imaging; *sub-01_ses01; **sub-04_ses-02
PET data: PET radiotracers [15O]H2O and [11C]PK11195 were acquired for 6min and 70min respectively, after bolus injections. The data were reconstructed on a 256 x 256 x 127 matrix (voxel size: 0.7 x 0.7 x 2.0 mm3), FOV: 26 cm axial using a point-spread function and OP-OSEM iterative reconstruction method including normalization as well as correction for attenuation (CT-based), scatter, random counts and dead time. [11C]PK11195 dynamic PET data were reconstructed in 28 frames: 6x10s, 6x20s, 6x120s and 8x300s. [15O]H2O dynamic PET were reconstructed in 26 frames: 8x4s, 4x6s, 6x10s, 8x20s. Lastly, a post-reconstruction 3D Gaussian filter of 4mm was applied.
Publications
- Chalet L, Debatisse J, Wateau O, Boutelier T, Wiart M, Costes N, Merida I, Redouté J, Langlois JB, Lancelot S, Léon C, Cho TH, Mechtouff L, Eker O, Nighoghossian N, Canet-Soulas E, Becker G. PREMISE: A database of 20 Macaca Fascicularis PET/MRI brain imaging available for research. bioRxiv 2023.03.03.530981; doi: https://doi.org/10.1101/2023.03.03.530981
- Becker G, Debatisse J, Rivière M, Crola Da Silva C, Beaudoin-Gobert M, Eker O, Wateau O, Cho TH, Wiart M, Tremblay L, Costes N, Mérida I, Redouté J, Léon C, Langlois JB, Le Bars D, Lancelot S, Nighoghossian N, Mechtouff L, Canet-Soulas E. Spatio-Temporal Characterization of Brain Inflammation in a Non-human Primate Stroke Model Mimicking Endovascular Thrombectomy. Neurotherapeutics. 2023 Apr;20(3):789-802. doi: 10.1007/s13311-023-01368-2. Epub 2023 Mar 28. PMID: 36976495; PMCID: PMC10275847.
- Debatisse J, et al. PET-MRI nanoparticles imaging of blood-brain barrier damage and modulation after stroke reperfusion. Brain Commun. 2020 Nov 11;2(2):fcaa193. doi: 10.1093/braincomms/fcaa193. PMID: 33305265; PMCID: PMC7716090.
- Debatisse J, Wateau O, Cho T-H, et al. A non-human primate model of stroke reproducing endovascular thrombectomy and allowing long-term imaging and neurological read-outs. Journal of Cerebral Blood Flow & Metabolism. 2021;41(4):745-760. doi:10.1177/0271678X20921310
Personnel
- Emmanuelle Canet-Soulas1
- Justine Debatisse2
- Oceane Wateau3
- Nicolas Costes4
- Inés Mérida4
- Sophie Lancelot4,5
- Jean-Baptiste Langlois4
- Christelle Léon1
- Omer Faruk Eker5,6
- Tae-Hee Cho1,5
- Lucie Chalet1,7
- Guillaume Becker1
1 CarMeN Laboratory, Université Claude Bernard Lyon 1, INSERM U1060, INRA U1397, Lyon, France
2 Institut des Sciences CognitivesMarc Jeannerod (ISCMJ), UMR 5229 CNRS, Bron Cedex, France
3 Cynbiose SAS,Marcy-L’Etoile, France, 4CERMEP, Lyon, France
4 CERMEP, Lyon, France
5 Hospices Civils de Lyon, Lyon, France
6 CREATIS, CNRS UMR-5220, INSERM U1206, Université Lyon 1, INSA Lyon Bât. Blaise Pascal , 7 Avenue Jean Capelle, Villeurbanne 69621, France
7 Olea Medical, La Ciotat, France
Acknowledgements
We acknowledge the IRIS team, the RHU MARVELOUS and its Scientific Advisory Board for fruitful discussions. The authors would like to express their gratitude to Cynbiose SAS scientific leadership, Joachim Confais and Hugues Contamin.
Funding
This work was supported by ANR CYCLOPS and CMRO2 (ANR-15-CE17-0020 and ANR-21-CE17-0028), the RHU MARVELOUS (ANR-16-RHUS-0009) of Lyon University, under the Investissements d’Avenir program of the French National Research Agency (ANR). The Ph.D. salary of LC (Cifre, Olea Medical) is co-funded by the French Ministry of Higher Education and Research (ANRT). Equipex LILI (LILI – Lyon Integrated Life Imaging: hybrid MR-PET ANR-11-EQPX-0026).
Downloads
The data for this site are password protected. Please complete the data usage agreement and submit to Emmanuelle Canet-Soulas and CMIDataUsage@childmind.org for access to the dataset.
Click here to download the encrypted 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.