Fast CSF MRI for brain segmentation; Cross-validation by comparison with 3D T1-based brain segmentation methods

• Published in: PloS one Vol. 13; no. 4; p. e0196119
• Main Authors: van der Kleij, Lisa A, de Bresser, Jeroen, Hendrikse, Jeroen, Siero, Jeroen C W, Petersen, Esben T, De Vis, Jill B
• Format: Journal Article
• Language: English
• Published: United States Public Library of Science 01-04-2018; Public Library of Science (PLoS)
• Subjects: Adult; Algorithms; Biology and Life Sciences; Brain; Brain - physiology; Brain Mapping - methods; Brain research; Cerebrospinal fluid; Cerebrospinal Fluid - diagnostic imaging; Clinical medicine; Correlation; Correlation analysis; Correlation coefficient; Correlation coefficients; Data processing; Feasibility studies; Female; Females; Fluid; Fluids; High resolution; Humans; Image processing; Image Processing, Computer-Assisted - methods; Image reconstruction; Image segmentation; Imaging, Three-Dimensional; Magnetic resonance imaging; Magnetic Resonance Imaging - methods; Male; Medicine and Health Sciences; Methods; Neuroimaging; NMR; Nuclear magnetic resonance; Reproducibility of Results; Research and Analysis Methods; Segmentation; Skull; Young Adult; Denmark; Netherlands
• ISSN: 1932-6203; 1932-6203
• DOI: 10.1371/journal.pone.0196119

In previous work we have developed a fast sequence that focusses on cerebrospinal fluid (CSF) based on the long T2 of CSF. By processing the data obtained with this CSF MRI sequence, brain parenchymal volume (BPV) and intracranial volume (ICV) can be automatically obtained. The aim of this study was to assess the precision of the BPV and ICV measurements of the CSF MRI sequence and to validate the CSF MRI sequence by comparison with 3D T1-based brain segmentation methods.
Ten healthy volunteers (2 females; median age 28 years) were scanned (3T MRI) twice with repositioning in between. The scan protocol consisted of a low resolution (LR) CSF sequence (0:57min), a high resolution (HR) CSF sequence (3:21min) and a 3D T1-weighted sequence (6:47min). Data of the HR 3D-T1-weighted images were downsampled to obtain LR T1-weighted images (reconstructed imaging time: 1:59 min). Data of the CSF MRI sequences was automatically segmented using in-house software. The 3D T1-weighted images were segmented using FSL (5.0), SPM12 and FreeSurfer (5.3.0).
The mean absolute differences for BPV and ICV between the first and second scan for CSF LR (BPV/ICV: 12±9/7±4cc) and CSF HR (5±5/4±2cc) were comparable to FSL HR (9±11/19±23cc), FSL LR (7±4, 6±5cc), FreeSurfer HR (5±3/14±8cc), FreeSurfer LR (9±8, 12±10cc), and SPM HR (5±3/4±7cc), and SPM LR (5±4, 5±3cc). The correlation between the measured volumes of the CSF sequences and that measured by FSL, FreeSurfer and SPM HR and LR was very good (all Pearson's correlation coefficients >0.83, R2 .67-.97). The results from the downsampled data and the high-resolution data were similar.
Both CSF MRI sequences have a precision comparable to, and a very good correlation with established 3D T1-based automated segmentations methods for the segmentation of BPV and ICV. However, the short imaging time of the fast CSF MRI sequence is superior to the 3D T1 sequence on which segmentation with established methods is performed.