Current MR protocol guidelines for multiple sclerosis (MS) diagnosis and follow-up recommend the acquisition of 3D sequences as high isotropic resolution improves lesion conspicuity; however, this prolongs clinical scan protocols. We present a qualitative and quantitative comparison of lesion assessment using a standard 3D FLAIR and an optimized CAIPIRINHA version in conjunction with compressed sensing MPRAGE in 44 MS patients. We compared the automated lesion segmentation results between protocols, with and without additional manual corrections of the lesion masks. Volumes using the optimized protocol highly correlated with the results from the conventional protocol, while reducing the acquisition time by 47%.
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