Human brain diffusion tensor imaging at submillimeter isotropic resolution on a 3 Tesla clinical MRI scanner

Chang, Hing‐Chiu; Sundman, Mark; Petit, Laurent; Guhaniyogi, Shayan; Matsuda, Chu; Petty, Christopher; Song, Allen W.; Chen, Nan‐kuei

doi:10.1016/j.neuroimage.2015.06.016

Cited by 60 publications

(81 citation statements)

References 27 publications

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“…Through a new model, termed 3D-MB-MUSE, image quality is ensured by reconstructing 3D ms-EPI data while simultaneously accounting for motion artifacts induced across different dimensions (in-plane and through-plane) throughout the acquisition of shots and kz-planes. In comparison, using the traditional 2D MUSE approach to reconstruct high-resolution 3D multi-shot dMRI data (Chang et al, 2015b) fails to appropriately account for both motion artifacts and coil sensitivity variations across the slice dimension of a relatively thin 3D slab (e.g. 10mm used in this report).…”

Section: Discussionmentioning

confidence: 95%

“…In the first data set, all shots in each kz-plane of the acquired 3D ms-EPI data were individually reconstructed with SENSE and combined through a complex average performed over shots. In the second data set, all kz-planes of the acquired 3D ms-EPI data were individually reconstructed with the 2D MUSE model, as in (Chang et al, 2015b). Finally, the kz-planes generated by both the SENSE and 2D MUSE reconstructions were converted to slice images through a 1D Fourier transform performed across kz.…”

Section: Methodsmentioning

confidence: 99%

“…(9) is reconstructed into un-aliased voxel values in all slices of all simultaneously excited slabs with both shot-to-shot and slab-encoding motion artifacts accounted for. It is of note that the 2D multi-band MUSE model (Chang et al, 2015b) is derived from Eq. (8) if N Z = N KZ =1, and the original 2D MUSE model (Chen et al, 2013) is derived when both N Z = N KZ =1 and N B =1.…”

Section: Theorymentioning

confidence: 99%

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3D-MB-MUSE: A robust 3D multi-slab, multi-band and multi-shot reconstruction approach for ultrahigh resolution diffusion MRI

et al. 2017

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Recent advances in achieving ultrahigh spatial resolution (e.g. sub-millimeter) diffusion MRI (dMRI) data have proven highly beneficial in characterizing tissue microstructures in organs such as the brain. However, the routine acquisition of in-vivo dMRI data at such high spatial resolutions has been largely prohibited by factors that include prolonged acquisition times, motion induced artifacts, and low SNR. To overcome these limitations, we present here a framework for acquiring and reconstructing 3D multi-slab, multi-band and interleaved multi-shot EPI data, termed 3D-MB-MUSE. Through multi-band excitations, the simultaneous acquisition of multiple 3D slabs enables whole brain dMRI volumes to be acquired in-vivo on a 3 Tesla clinical MRI scanner at high spatial resolution within a reasonably short amount of time. Representing a true 3D model, 3D-MB-MUSE reconstructs an entire 3D multi-band, multi-shot dMRI slab at once while simultaneously accounting for coil sensitivity variations across the slab as well as motion induced artifacts commonly associated with both 3D and multi-shot diffusion imaging. Such a reconstruction fully preserves the SNR advantages of both 3D and multi-shot acquisitions in high resolution dMRI images by removing both motion and aliasing artifacts across multiple dimensions. By enabling ultrahigh resolution dMRI for routine use, the 3D-MB-MUSE framework presented here may prove highly valuable in both clinical and research applications.

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Section: Discussionmentioning

confidence: 95%

Section: Methodsmentioning

confidence: 99%

Section: Theorymentioning

confidence: 99%

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3D-MB-MUSE: A robust 3D multi-slab, multi-band and multi-shot reconstruction approach for ultrahigh resolution diffusion MRI

et al. 2017

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“…The primary challenges include motion sensitivity and the reduced SNR at high spatial resolution, in which the latter is particularly problematic for diffusion MRI due to its low intrinsic SNR, which often means imaging near the noise floor. To improve the SNR of in vivo high-resolution diffusion MRI without substantially increasing the scan time, the two dominant approaches are the use of ultra-high field (7T and up) scanners (Heidemann et al, 2012, Eichner et al, 2014, Strotmann et al, 2014, Vu et al, 2015) and acquisition schemes with higher SNR per unit time compared to the current standard, two dimensional (2D) single-shot echo planar imaging (EPI) (Van et al, 2011, Setsompop et al, 2012a, Engstrom and Skare, 2013, Uğurbil et al, 2013, Frost et al, 2014, Chang et al, 2015). …”

Section: Introductionmentioning

confidence: 99%

“…A number of methods for reducing these artefacts have been proposed (Oshio et al, 1991, Parker et al, 1991, Murakami et al, 1995, Van et al, 2011, Engstrom and Skare, 2013, Frost et al, 2014, Chang et al, 2015), all of which increase scan time due to oversampling/overlapping of slabs, and often require a longer TR to reduce the saturation effects at slab boundaries (Engstrom et al, 2015). The slab profile encoding (PEN) method (Van et al, 2015) can correct the aliasing artefacts with minimal increase in scan time (except for a calibration scan), but exhibits residual artefacts below TR~4 s (Wu et al, 2015).…”

Section: Introductionmentioning

confidence: 99%

High-resolution diffusion MRI at 7T using a three-dimensional multi-slab acquisition

Poser

Douaud

et al. 2016

NeuroImage

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High-resolution diffusion MRI can provide the ability to resolve small brain structures, enabling investigations of detailed white matter architecture. A major challenge for in vivo high-resolution diffusion MRI is the low signal-to-noise ratio. In this work, we combine two highly compatible methods, ultra-high field and three-dimensional multi-slab acquisition to improve the SNR of high-resolution diffusion MRI. As each kz plane is encoded using a single-shot echo planar readout, scan speeds of the proposed technique are similar to the commonly used two-dimensional diffusion MRI. In-plane parallel acceleration is applied to reduce image distortions. To reduce the sensitivity of auto-calibration signal data to subject motion and respiration, several new adaptions of the fast low angle excitation echo-planar technique (FLEET) that are suitable for 3D multi-slab echo planar imaging are proposed and evaluated. A modified reconstruction scheme is proposed for auto-calibration with the most robust method, Slice-FLEET acquisition, to make it compatible with navigator correction of motion induced phase errors. Slab boundary artefacts are corrected using the nonlinear slab profile encoding method recently proposed by our group. In vivo results demonstrate that using 7T and three-dimensional multi-slab acquisition with improved auto-calibration signal acquisition and nonlinear slab boundary artefacts correction, high-quality diffusion MRI data with ~1 mm isotropic resolution can be achieved.

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Assessment of the Depiction of Superficial White Matter Using Ultra‐High‐Resolution Diffusion MRI

Zhang,

Chen,

Ning

et al. 2024

Human Brain Mapping

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The superficial white matter (SWM) consists of numerous short‐range association fibers connecting adjacent and nearby gyri and plays an important role in brain function, development, aging, and various neurological disorders. Diffusion MRI (dMRI) tractography is an advanced imaging technique that enables in vivo mapping of the SWM. However, detailed imaging of the small, highly‐curved fibers of the SWM is a challenge for current clinical and research dMRI acquisitions. This work investigates the efficacy of mapping the SWM using in vivo ultra‐high‐resolution dMRI data. We compare the SWM mapping performance from two dMRI acquisitions: a high‐resolution 0.76‐mm isotropic acquisition using the generalized slice‐dithered enhanced resolution (gSlider) protocol and a lower resolution 1.25‐mm isotropic acquisition obtained from the Human Connectome Project Young Adult (HCP‐YA) database. Our results demonstrate significant differences in the cortico‐cortical anatomical connectivity that is depicted by these two acquisitions. We perform a detailed assessment of the anatomical plausibility of these results with respect to the nonhuman primate (macaque) tract‐tracing literature. We find that the high‐resolution gSlider dataset is more successful at depicting a large number of true positive anatomical connections in the SWM. An additional cortical coverage analysis demonstrates significantly higher cortical coverage in the gSlider dataset for SWM streamlines under 40 mm in length. Overall, we conclude that the spatial resolution of the dMRI data is one important factor that can significantly affect the mapping of SWM. Considering the relatively long acquisition time, the application of dMRI tractography for SWM mapping in future work should consider the balance of data acquisition efforts and the efficacy of SWM depiction.

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Human brain diffusion tensor imaging at submillimeter isotropic resolution on a 3 Tesla clinical MRI scanner

Cited by 60 publications

References 27 publications

3D-MB-MUSE: A robust 3D multi-slab, multi-band and multi-shot reconstruction approach for ultrahigh resolution diffusion MRI

3D-MB-MUSE: A robust 3D multi-slab, multi-band and multi-shot reconstruction approach for ultrahigh resolution diffusion MRI

High-resolution diffusion MRI at 7T using a three-dimensional multi-slab acquisition

Assessment of the Depiction of Superficial White Matter Using Ultra‐High‐Resolution Diffusion MRI

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