MRI Protocol for Cerebral and Cerebellar Lesion Quantification

MRI was performed using a 3.0 T scanner (Philips Achieva, The Netherlands) with an 8-channel SENSE phased-array head coil and a 16-channel receive-only neuro-vascular spine coil. The MRI protocol included a brain axial dual echo TSE and a brain sagittal 3D T1-weighted turbo field echo sequences as previously described^{7 (link)}. The spine sagittal T2- weighted TSE sequence was acquired as following: TR = 4,097 ms, TE = 120 ms, FOV = 250 × 250 mm, matrix size = 512 × 512, 13 3 mm-thick slices. Brain T2 and T1 lesion volumes (LV) were measured as described before^{17 (link)}. Cerebellar lesion loads were measured on dual echo/3D T1 scans following the same steps applied for whole brain LV quantification. Two time-point percentage brain volume change (PBVC) was computed with SIENA^{18 (link)} on T1-weighted-lesion-filled and non-uniformity corrected images. Cerebellar cortical and WM volumes were measured using Freesurfer v5.3.0 longitudinal pipeline^{19 (link),20 (link)}.

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Amatruda M., Petracca M., Wentling M., Inbar B., Castro K., Chen E.Y., Kiebish M.A., Edwards K., Inglese M, & Casaccia P. (2020). Retrospective unbiased plasma lipidomic of progressive multiple sclerosis patients-identifies lipids discriminating those with faster clinical deterioration. Scientific Reports, 10, 15644.

Publication 2020

3.0 T scanner 8-channel SENSE phased-array head coil

Brain Cerebellar Cerebellar cortical Echo Head Scans Spine Vascular

Corresponding Organization : The Graduate Center, CUNY

Other organizations : Icahn School of Medicine at Mount Sinai, Multiple Sclerosis Center Of Northeastern New York

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Variable analysis

independent variables

Magnetic field strength (3.0 T)
MRI scanner (Philips Achieva, The Netherlands)
MRI coils (8-channel SENSE phased-array head coil and 16-channel receive-only neuro-vascular spine coil)

dependent variables

Brain T2 and T1 lesion volumes (LV)
Cerebellar lesion loads
Percentage brain volume change (PBVC)
Cerebellar cortical and white matter volumes

control variables

TR = 4,097 ms
TE = 120 ms
FOV = 250 × 250 mm
Matrix size = 512 × 512
Slice thickness = 13 3 mm

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