Visualization of intra-thalamic nuclei with optimized white-matter-nulled MPRAGE at 7T

• Published in: NeuroImage (Orlando, Fla.) Vol. 84; pp. 534 - 545
• Main Authors: Tourdias, Thomas, Saranathan, Manojkumar, Levesque, Ives R., Su, Jason, Rutt, Brian K.
• Format: Journal Article
• Language: English
• Published: United States Elsevier Inc 01.01.2014; Elsevier Limited
• Subjects: 7 T; Adult; Algorithms; Brain research; Female; Humans; Image Enhancement - methods; Image Interpretation, Computer-Assisted - methods; Magnetic Resonance Imaging; Male; Medical research; Methods; Multiple sclerosis; Pattern Recognition, Automated - methods; Reproducibility of Results; Sensitivity and Specificity; Subtraction Technique; Thalamic nuclei; Thalamic Nuclei - cytology; Thalamus; Ultra high field; White Matter - cytology; White matter nulled MPRAGE; CNR; Sth; MTT; Thalamic nuclei; VPL; SNR; WM; CSF; MD; Thalamus; Hb; COM; White matter nulled MPRAGE; Ultra high field; GM; Pul; ICC; MPRAGE sequence; CM; VLa; VA; ROI; TD; LGN; AV; MGN; TI; LD; VLp; RN; 7T; TS; Magnetization-prepared rapidly-acquired gradient echo sequence; Pulvinar; Subthalamic nucleus; Intraclass correlation coefficient; Anterior ventral nucleus; Signal-to-noise ratio; Ventral lateral posterior nucleus; Gray matter; Inversion time; White matter; Medial geniculate nucleus; Region-of-interest; Ventral lateral anterior nucleus; Lateral geniculate nucleus; Habenular nucleus; Mediodorsal nucleus; Center median nucleus; Lateral dorsal nucleus; Center of mass; Contrast-to-noise ratio; Delay time; Shot interval time; Ventral posterior lateral nucleus; Mammillothalamic tract; Red nucleus; Cerebro-spinal fluid; Ventral anterior nucleus
• ISSN: 1053-8119; 1095-9572
• DOI: 10.1016/j.neuroimage.2013.08.069

Novel MR image acquisition strategies have been investigated to elicit contrast within the thalamus, but direct visualization of individual thalamic nuclei remains a challenge because of their small size and the low intrinsic contrast between adjacent nuclei. We present a step-by-step specific optimization of the 3D MPRAGE pulse sequence at 7T to visualize the intra-thalamic nuclei. We first measured T1 values within different sub-regions of the thalamus at 7T in 5 individuals. We used these to perform simulations and sequential experimental measurements (n=17) to tune the parameters of the MPRAGE sequence. The optimal set of parameters was used to collect high-quality data in 6 additional volunteers. Delineation of thalamic nuclei was performed twice by one rater and MR-defined nuclei were compared to the classic Morel histological atlas. T1 values within the thalamus ranged from 1400ms to 1800ms for adjacent nuclei. Using these values for theoretical evaluations combined with in vivo measurements, we showed that a short inversion time (TI) close to the white matter null regime (TI=670ms) enhanced the contrast between the thalamus and the surrounding tissues, and best revealed intra-thalamic contrast. At this particular nulling regime, lengthening the time between successive inversion pulses (TS=6000ms) increased the thalamic signal and contrast and lengthening the α pulse train time (N*TR) further increased the thalamic signal. Finally, a low flip angle during the gradient echo acquisition (α=4°) was observed to mitigate the blur induced by the evolution of the magnetization along the α pulse train. This optimized set of parameters enabled the 3D delineation of 15 substructures in all 6 individuals; these substructures corresponded well with the known anatomical structures of the thalamus based on the classic Morel atlas. The mean Euclidean distance between the centers of mass of MR- and Morel atlas-defined nuclei was 2.67mm (±1.02mm). The reproducibility of the MR-defined nuclei was excellent with intraclass correlation coefficient measured at 0.997 and a mean Euclidean distance between corresponding centers of mass found at first versus second readings of 0.69mm (±0.38mm). This 7T strategy paves the way to better identification of thalamic nuclei for neurosurgical planning and investigation of regional changes in neurological disorders. •We optimized the MPRAGE sequence at 7T to enhance intra-thalamic T1 differences.•An inversion time that nearly nulls white matter enhances thalamus contrast.•In vivo 7T delineation of thalamic nuclei was reproducible and matched the atlas.•7T MPRAGE could improve surgical planning and studies of regional thalamic changes.