Data were acquired on a Siemens 3T Trio scanner (Erlanger, Germany) with a 12-channel Siemens Matrix head coil. To help stabilize head position, each subject was fitted with a thermoplastic mask fastened to holders on the head coil. A T1-weighted MPRAGE structural image was obtained (slice time echo = 3.08 ms, TR = 2.4 s, inversion time = 1 s, flip angle = 8°, 176 slices, 1 × 1 × 1 mm voxels). All functional runs were acquired parallel to the anterior–posterior commissure plane (TE = 27 ms; volume TR = 2.5 s, flip angle = 90°, in-plane resolution = 4 × 4 mm), using a blood oxygen level-dependent (BOLD) contrast-sensitive asymmetric spin-echo echo-planar sequence. Whole-brain coverage was obtained with 32 contiguous interleaved 4 mm axial slices. Steady-state magnetization was assumed after 4 frames. An auto-align pulse sequence protocol provided in the Siemens software was used to align the acquisition slices to the anterior and posterior commissure (AC-PC) plane and centered on the brain. A T2-weighted turbo spin-echo structural image (TE = 84 ms, TR = 6.8 s, 32 slices with 1 × 1 × 4 mm voxels) was also obtained in the same anatomical plane as the BOLD images to improve alignment to the atlas.
Head matrix coil
Manufactured by Siemens
Sourced in Germany
The Head Matrix coil is a magnetic resonance imaging (MRI) component designed for Siemens MRI systems. It is used for acquiring images of the human head. The coil provides a uniform magnetic field and signal reception to enable high-quality imaging of the brain and associated structures.
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5 protocols using head matrix coil
1
3T fMRI Imaging Protocol for Brain Mapping
2
Functional Neuroimaging of Cognitive Processes
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Participants were scanned using a Siemens Trio 3T magnet with a standard 12-channel ‘matrix' head coil. T2*-weighted functional images were collected with a continuous echo-planar imaging sequence (30 slices, matrix size=64 × 64, 5-mm thick, TR=2,000 ms, TE=30 ms, flip angle=70°, FOV=200 mm, voxel size=3.125 × 3.125 × 5 mm). High-resolution T1-weighted anatomical images were acquired after three functional runs using SPGR (axial orientation, 160 slices, 1-mm thick, TR=2,000 ms, TE=2.6 ms, FOV=256 mm).
The fMRI data were pre-processed using Analysis of Functional Neuroimages software (AFNI 2011 (ref. 40 (link)). In the pre-processing stage, fMRI data were spatially co-registered to correct for head motion using a 3D Fourier transform interpolation. For each run, images acquired at each point in the time-series were aligned volumetrically to a reference image acquired during the scanning session using the 3dvolreg plugin in AFNI. The pre-processed images were then concatenated and analysed by univariate General Linear Model (GLM) and MVPA.
The fMRI data were pre-processed using Analysis of Functional Neuroimages software (AFNI 2011 (ref. 40 (link)). In the pre-processing stage, fMRI data were spatially co-registered to correct for head motion using a 3D Fourier transform interpolation. For each run, images acquired at each point in the time-series were aligned volumetrically to a reference image acquired during the scanning session using the 3dvolreg plugin in AFNI. The pre-processed images were then concatenated and analysed by univariate General Linear Model (GLM) and MVPA.
3
Diffusion Imaging and FLAIR MRI Protocol
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Imaging data were acquired using a Siemens 1.5-T MAGNETOM Avanto (Siemens, Erlangen, Germany) whole body scanner equipped with a 12-element designed Head Matrix coil, as part of the standard system configuration. Diffusion-weighted images (DWIs) were acquired using an axial pulsed-gradient spin-echo echo-planar sequence (7600/103; 38 sections; section thickness, 3.0 mm with no intersection gap), with diffusion-encoding gradients applied in 12 noncollinear directions (b factor 0 and 1000 sec/mm2; number of acquired signals, four). A 2D fluid-attenuated inversion recovery (FLAIR) T2-weighted scan was also used to exclude the presence of small vessel ischemic disease and other supra- or infra-tentorial brain lesions (Repetition Time [TR] = 11 460 ms, Echo Time [TE] = 102 ms, Inversion Time [TI] = 2360 ms, Field of View [FOV] = 280 mm × 330 mm, Number of Excitations [NEX] = 2, matrix = 248 × 320, 1.00 × 1.00 mm2 in-plane resolution, horizontal slices with a slice thickness of 3.0 mm and no gap).
4
Diffusion-Weighted Imaging and FLAIR MRI Protocol
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Imaging data were acquired using a Siemens 1.5-T MAGNETOM Avanto (Siemens, Erlangen, Germany) whole body scanner equipped with a 12-element designed Head Matrix coil, as part of the standard system configuration. Diffusion-weighted images (DWIs) were acquired using an axial pulsed-gradient spin-echo echo-planar sequence (7600/103; 38 sections; section thickness, 3.0 mm with no intersection gap), with diffusion-encoding gradients applied in 12 non-collinear directions (b factor 0 and 1000 s/mm2; number of acquired signals, four). A 2D fluid-attenuated inversion recovery (FLAIR) T2-weighted scan was also used to exclude the presence of small vessel ischemic disease and other supra- or infra-tentorial brain lesions [Repetition Time (TR) = 11,460 ms, Echo Time (TE) = 102 ms, Inversion Time (TI) = 2360 ms, Field of View (FOV) = 280 × 330 mm, Number of Excitations (NEX) = 2, matrix = 248 × 320, 1.00 × 1.00 mm2 in-plane resolution, horizontal slices with a slice thickness of 3.0 mm and no gap].
5
Multimodal Brain Imaging Protocol
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CT data were acquired from a Philips/Brilliance 64, the Head scan protocol was set to 119 mA X-ray for the tube current and 120 KV for tube voltage, and the slice thickness is typically between 0.6 and 1 mm.
MRI data were acquired from a 1.5T Siemens Avanto and the head coil used was Head Matrix Coil from Siemens. Both anatomical images and DTI were acquired for this process. The DTI protocol included a spin echo-echo planar imaging- (SE-EPI-) based DTI sequence with 20 diffusion directions, two repetitions to boost the SNR and b value (b is the diffusion sensitivity) equal to 1000 s/mm2. The anatomical image protocol included a T1-weighted 3D magnetization-prepared rapid acquisition gradient echo sequence (MP-RAGE).
MRI data were acquired from a 1.5T Siemens Avanto and the head coil used was Head Matrix Coil from Siemens. Both anatomical images and DTI were acquired for this process. The DTI protocol included a spin echo-echo planar imaging- (SE-EPI-) based DTI sequence with 20 diffusion directions, two repetitions to boost the SNR and b value (b is the diffusion sensitivity) equal to 1000 s/mm2. The anatomical image protocol included a T1-weighted 3D magnetization-prepared rapid acquisition gradient echo sequence (MP-RAGE).
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