3T MRI Neuroimaging Preprocessing Protocol

Scans were acquired using a whole-body 3.0 Tesla (3T) dStream MRI Scanner (Philips Healthcare, Best, The Netherlands) equipped with a volume transmit 32-channel receiver head coil (Nova Medical, Wilmington, Massachusetts, USA). The scanning protocol included: T1-weighted (T1W) fast field echo and T2-weighted (T2W) turbo spin echo (TSE), T2W fluid-attenuated inversion recovery (FLAIR) sequences, and a multi-b shells diffusion-weighted imaging sequence, the parameters of which are presented in Table 2.
All the diffusion-weighted images were corrected using FMRIB Software Library (FSL) topup and eddy toolbox (https://fsl.fmrib.ox.ac.uk/fsl/) to remove susceptibility and eddy current-induced distortions. After that, the neurite orientation dispersion and density imaging (NODDI) toolbox (http://mig.cs.ucl.ac.uk/index.php?n=Tutorial.NODDImatlab) was used to reconstruct all the NODDI parametric maps (24 (link)–26 (link)). AD and V_ax were fitted as previously reported (27 (link)).
Lastly, each map was co-registered and resampled to the T2W TSE image as an affine co-registration using the FMRIB's Linear Image Registration Tool (FLIRT) toolbox in FSL (https://fsl.fmrib.ox.ac.uk/fsl/).

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Yoon K., Archer D.B., Clarke M.A., Smith S.A., Oguz I., Cutter G., Xu J, & Bagnato F. (2022). Transcallosal and Corticospinal White Matter Disease and Its Association With Motor Impairment in Multiple Sclerosis. Frontiers in Neurology, 13, 811315.

Publication 2022

3T) dStream MRI Scanner

Body Diffusion Echo Head Inversion Library Maps Neurite Susceptibility

Corresponding Organization : VA Tennessee Valley Healthcare System

Other organizations : Vanderbilt University, University of Alabama at Birmingham

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Variable analysis

independent variables

None explicitly mentioned

dependent variables

NODDI parametric maps (including AD and V_ax)

control variables

3.0 Tesla (3T) dStream MRI Scanner (Philips Healthcare, Best, The Netherlands) equipped with a volume transmit 32-channel receiver head coil (Nova Medical, Wilmington, Massachusetts, USA)
T1-weighted (T1W) fast field echo and T2-weighted (T2W) turbo spin echo (TSE), T2W fluid-attenuated inversion recovery (FLAIR) sequences, and a multi-b shells diffusion-weighted imaging sequence

positive controls

None specified

negative controls

None specified

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