The University of Oxford dataset includes anatomical, diffusion, and fMRI data from 20 monkeys.
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Note: The investigators of the University of Oxford dataset are keen on making it as easy as possible for users to access the data. However, because of an agreement made previously with the scanner manufacturer, we ask that users publishing analyses using these data do not report the scanner manufacturer.
- Scanner type: 3T whole body scanner
- Coil: A four-channel, phased-array, radio-frequency coil in conjunction with a local transmission coil was used for data acquisition (Windmiller Kolster Scientific).
- Sample size: 20
- Age distribution: 2.41-6.72 years (mean 4.01, std 0.95)
- Weight distribution: 4.35-11.7 kg (mean 6.57, std 2.00)
- Sex distribution: all male
Click here for the full sample description (.csv)
Click here for the anaesthesia records(.csv)
Scan Procedures and Parameters
Ethics approval: Protocols for animal care, magnetic resonance imaging, and anaesthesia were carried out under authority of personal and project licenses in accordance with the UK Animals (Scientific Procedures) Act 1986.
Animal care and housing: Animals were housed in groups.
Any applicable training: none
Anesthesia procedures: Anesthesia was induced using intramuscular injection of ketamine (10 mg/kg) combined with either xylazine (0.125– 0.25 mg/kg) or midazolam (0.1 mg/kg) and buprenorphine (0.01 mg/kg). Macaques also received injections of atropine (0.05 mg/kg, i.m.), meloxicam (0.2 mg/kg, i.v.), and ranitidine (0.05 mg/kg, i.v.). Local anesthetic (5% lidocaine/prilocaine cream and 2.5% bupivacaine injected subcutaneously around the ears to block peripheral nerve stimulation) was also used at least 15 min before placing the macaque in the stereotaxic frame. Anesthesia was maintained with isoflurane.
Time between anesthesia and scanning: Scanning commenced 1.5–2 hours after induction, when the peak effect of ketamine was unlikely still to be present.
Head fixation: The anesthetized animals were placed in an MRI-compatible stereotactic frame (Crist Instrument) in a sphinx position within a horizontal 3T MRI scanner with a full-size bore.
Position in scanner and procedure used: The anesthetized animals were placed in an MRI-compatible stereotactic frame (Crist Instrument) in a sphinx position within a horizontal 3T MRI scanner with a full-size bore.
Contrast agent: None
Physiological monitoring: In accordance with veterinary instruction, anesthesia was maintained using the lowest possible concentration of isoflurane gas. The depth of anesthesia was assessed using physiological parameters (continuous monitoring of heart rate and blood pressure as well as clinical checks for muscle relaxation before scanning). See the anaesthesia record for more information (.xlsx).
Additional procedures: Macaques were maintained with intermittent positive-pressure ventilation to ensure a constant respiration rate during the functional scan. Respiration rate, inspired and expired CO2, and inspired and expired isoflurane concentration were monitored and recorded using VitalMonitor software (Vetronic Services). In addition to these parameters, core temperature was monitored using an Opsens temperature sensor, and pulse rate and O2 saturation (>95%) were monitored using a Nonin Medical sensor throughout the scan.
- Voxel resolution: 2.0 x 2.0 x 2.0mm
- TE: 19ms
- TR: 2000ms
- Flip angle: 90°
- MPRAGE Sequence
- Voxel resolution: 0.5 x 0.5 x 0.5mm
- TE: 4.01ms
- TR: 2500ms
- TI: 1100ms
- Flip angle: 8°
- Number of averages: 1
- Noonan MP, Sallet J, Mars RB, Neubert FX, O'Reilly JX, Andersson JL, Mitchell AS, Bell AH, Miller KL, Rushworth MFS (2014) A neural circuit covarying with social hierarchy in macaques. PLoS Biology 12:e1001940
- Jerome Sallet
- Rogier B. Mars
- Matthew F.S. Rushworth
We thank Urs Schuffelgen for his help processing these data.
The Oxford data acquisition and release was made possible thanks to core funding from the Wellcome Trust and individual grants from the Wellcome Trust, Royal Society, Medical Research Council UK, and the Biotechnology and Biological Sciences Research Council UK
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.