fMRI (T2*)
- Location: Research\Rorden\fMRI07\fMRIcontin30x30x36
- Time per volume: 0:03
- Notes: Rapid functional scan for analysis with
SPM or FSL. Alternatively, you may get slightly better signal with a TE of 35ms (requiring a 2380ms TR). Go to the BOLD tab and set the 'measurements to specify how many volumes you want to acquire.
- Protocol: This EPI scan uses a 90-degree flip
angle, TE= 30ms, TR=2200ms, 64x64 matrix, 192x192mm FOV, 36 ascending 3mm thick slices with 20% slice gap (effectively 3x3x3.6mm between voxel centers), bandwidth 2232 Hz/px. For B0 unwarpong, echo spacing 0.51ms, phase encoding is A>P ("y-").
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Field Map (B0)
- Location: Research\Rorden\fMRI07\grefield30x30x36
- Time per volume:0:54.
- Notes: Designed for FSL B0 undistortion - this image can be used to determine and correct for spatial disotortion in the fMRI protocol. Use ''Copy Parameters" to collect an image with the same position and orientation as the fMRI sequence.
- Protocol: This Gradient Echo scan acquires two TEs (5.19 and 7.65ms) to measure the magnetic field. Magnitude images for both echos as well as the estimated field map are saved. 64x64 matrix, 192x192mm FOV, 36 3mm thick slices with 20% slice gap (effectively 3x3x3.6mm between voxel centers). When you acquire this image, remember that it must have identical spatial positioning to the fMRI scan. Acquire the first scan (fieldmap or fMRI) as normal, than plan the second scan by dragging the sequence to the queue and then right-clicking on the previous scan so you can choose the 'Copy' option and choose to save the slice positioning information. This will ensure that the fMRI and field map show the same regions.
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T1
- Location: Research\Rorden\fMRI07\Anatomical1x1x1ipat2
- Time per volume: 6:17
- Notes: Good structural scan with excellent
contrast of gray and white matter. Excellent for
segmentation with VBM and coregistration with SPM
and FSL.
- Protocol: This MP-RAGE sequence uses the
12-channel head-coil to acquire an image with a
TI of 900ms, a TR of 2250ms between TFE shots and
a 9 degree flip angle, with a very short TE
(4.52ms). A total of 160 1mm sagittal slices are
acquired, each with a 256x256matrix and 256x256mm FOV.
- Examples:
Homogeneity corrected and spatially normalized
image shown on the left. Raw scan shown on the right.
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T2
- Location: Research\Rorden\fMRI07\T2 3D TSE SAG NS Paul
- Time per volume: 8:34
- Notes: Good scan for identifying brain injury. Typically T2 scans have very thick slices. This protocol offers a isotropic 1mm image that is great for lesion mapping and
normalization.
- Protocol: This TSE scan uses a TR of 3200ms, a TE of 354ms, 256x256 matrix scan with 160 slices has 1x1x1mm resolution.
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Time-of-flight
- Location: Research\Rorden\fMRI\T2
- Time per volume: 6:04
- Notes: Good scan for identifying aneurysms and stenosis. This scan highlights arterial blood. While many angiograms require
contrast agents (such as Gadolinium), this sequence requires no
injections (the rapidly flowing blood acts as a contrast agent).
- Protocol: This sequence uses a TR of 22ms and a TE of
3.68ms, with an 18-degree flip angle. The reconstructed image is saved
as a 384x384 matrix scan with 127 slices and an interpolated
0.5x0.5x0.7mm resolution.
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Diffusion Tensor Imaging
- Location: Research\Rorden\fMRI\DTI64Dirb100020PPU
- Time per volume: 8:18
- Notes: Useful for mapping white-matter integrity. Acquisition is gated by pulse, so ensure that the participant is wearing the remote pulse sensor on a finger.
- Protocol:
This 64-direction sequence uses a TR of 7300ms and a TE of 87ms, the image is saved as a 96x96 matrix scan
with 60 axial slices and a 2x2x2mm resolution. The image on the right is after FSL eddy current correction, rendered using MedINRIA.
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