Structural MRI Protocol for Brain Volumetry

MRI was performed on a Siemens MAGNETOM Verio 3.0 T scanner (Siemens Healthcare), using a 32-channel head coil. Each patient had conventional structural imaging, acquired with the following parameters: T₁ MPRAGE [echo time (TE) = 2.98 ms, repetition time (TR) = 2.3 s, 1 mm isotropic voxel, 256 × 256 mm field of view, inversion time (TI) = 900 ms, flip angle = 9°, GRAPPA = 2, 5 min scanning time], T₂ FLAIR (TE = 395 ms, TR = 5 s, TI = 1800 ms, 1 mm isotropic voxel, 250 × 250 mm field of view, GRAPPA = 2, 6 min scanning time), susceptibility weighted imaging (SWI) (120 1.2-mm-thick transverse slices, TR = 28 ms, TE = 20 ms, flip angle = 15°, in-plane resolution = 0.8 × 0.6 mm, field of view = 225 × 225 mm). Brain tissue volumes, white matter, grey matter and total intracranial volume (TICV) were computed for all participants, using a standard morphometry pipeline on T₁-weighted images with SPM12, University College London, www.fil.ion.ucl.ac.uk/spm (1 October 2021, date last accessed).⁴⁷ These procedures were previously described in more detail.^{7 (link)} Analysis of behavioural tests and MRI volume estimates were conducted using the R statistical environment.⁴⁸

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Bourke N.J., Demarchi C., De Simoni S., Samra R., Patel M.C., Kuczynski A., Mok Q., Wimalasundera N., Vargha-Khadem F, & Sharp D.J. (2022). Brain volume abnormalities and clinical outcomes following paediatric traumatic brain injury. Brain, 145(8), 2920-2934.

Publication 2022

MAGNETOM Verio 3.0 T scanner

Behavioural tests Brain Echo Grey matter Head Inversion Patient Susceptibility Tissue White matter

Corresponding Organization : UK Dementia Research Institute

Other organizations : University College London, Great Ormond Street Hospital, King's College London, Charing Cross Hospital, Imperial College Healthcare NHS Trust, Royal Children's Hospital

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Variable analysis

independent variables

None explicitly mentioned

dependent variables

Brain tissue volumes (white matter, grey matter, total intracranial volume)

control variables

Siemens MAGNETOM Verio 3.0 T scanner
32-channel head coil
T1 MPRAGE imaging parameters (TE = 2.98 ms, TR = 2.3 s, 1 mm isotropic voxel, 256 × 256 mm field of view, TI = 900 ms, flip angle = 9°, GRAPPA = 2)
T2 FLAIR imaging parameters (TE = 395 ms, TR = 5 s, TI = 1800 ms, 1 mm isotropic voxel, 250 × 250 mm field of view, GRAPPA = 2)
Susceptibility weighted imaging (SWI) parameters (120 1.2-mm-thick transverse slices, TR = 28 ms, TE = 20 ms, flip angle = 15°, in-plane resolution = 0.8 × 0.6 mm, field of view = 225 × 225 mm)

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