Techniques

Measurements

● 3-Tesla MRI scanner (Siemens MAGNETOME Prisma)

● 64ch phased-array head & Neck coil for human study

● 20ch phased-array head & Neck coil for human study

● Customized phased-array RF coils needed for high spec animal imaging (marmoset head, macaque head) 

● Analogue data acquisition system (EMG, ECG, SpO2, HR, etc)

● Monitoring system with SpO2 sensor and two sets of internet cameras

● MR-compatible digital display and Visual stimulation projector for fMRI studies

● Audio-visual stimulation devices for fMRI studies

● Response box for fMRI studies

● Anesthesia machine (Cato, Dräger) for animal studies


Analyses

We use FSL, DTI-TK, Caret, Freesurfer, Matlab, SPM, python, pybld, Pmod etc. The followings are a list of tools that we developed for analysis based on other softwares. We share them in hope that they would help those who are interested in. 

A set of command-line scripts for preprocesssing of diffusion MRI data and corrects for motion and distortion using fieldmap data. It is built on FSL (ver 4.1 and later). It was used in Hayashi et al. Mol Neurodegener 2013.

fmri_preprocess*
A script for command-line preprocesssing of fMRI data and corrects for motion and distortion using fieldmap data. It is built on FSL (ver 4.1 and later). It was used in Hayashi et al. PNAS 2013.

fslppi*
A set of command-line python scripts for analysis of psychophysiological interaction (PPI) using FSL. It was used in Hayashi et al. PNAS 2013.

macaque DTI template*
Macaque brain template of diffusion tensor imaging (DTI) in Montreal Neurological Institute (MNI) space. A part of this work was presented at HBM 2013.

*Coming soon.