Effects of Multiband Acceleration on High Angular Resolution Diffusion Imaging data collection, processing, and analysis.
Adam Scott Bernstein1, Derek Pisner2, Aleksandra Klimova2, Lavanya Umapathy3, Loi Do1, Scott Squire4, Scott Killgore2, and Theodore Trouard1

1Biomedical Engineering, University of Arizona, Tucson, AZ, United States, 2Psychiatry, University of Arizona, Tucson, AZ, United States, 3Electrical and Computer Engineering, University of Arizona, Tucson, AZ, United States, 4Radiology, University of Arizona, Tucson, AZ, United States

Synopsis

Multiband imaging allows for greater imaging speeds when collecting diffusion weighted MR images. As shown in this work, this saving in time results in small changes in several stages of diffusion image processing including tensor fitting and the associated calculation of scalar values such as FA, fiber orientation distribution calculation as in constrained spherical deconvolution, and tractography.

Introduction

One of the largest obstacles preventing high angular resolution diffusion imaging (HARDI) and multi shell diffusion-weighted imaging from being incorporated into standard diffusion MRI (DMRI) protocols is the large time burden required to collect sufficient numbers of images with different direction encodings directions and b-values. Recently, multi-band techniques 1,2, which excite and collect data from multiple slices simultaneously, have greatly increased the speed of acquisition and hold tremendous potential for extending the range of DMRI sequences that can be carried out within research or clinical protocols. To date, however, there has been little validation of the techniques in terms of the effects of multiband acceleration on resulting diffusion parameters. In this study, we have explored the differences of DMRI data collected with and without MB acceleration, and investigate the effects that MB acceleration has on resulting DMRI parameters.

Methods

Seven healthy subjects were scanned on a 3T Siemens Skyra with a 72 direction, b=1000 s/mm2 protocol. Without MB acceleration, TR/TE = 9600/88 ms. With a MB acceleration of 2, TR/TE = 5000/102 ms and with MB acceleration of 3, TR/TE = 4000/102 ms. Six b=0 images were obtained in each of the studies and two additional b=0 images were collected with reverse phase encoding direction to correct EPI distortions using the TOPUP routine within FSL 3,4. Images were also corrected for eddy currents using the EDDY routine in FSL. LPCA denoising as described by Manjon et al. 5 was implemented in MATLAB. MRTrix was used to generate FOD maps as well as to perform probabilistic tractography and track density image formation 6,7. MATLAB 2015a was used for statistical analysis and calculation of FOD coefficients for constrained spherical deconvolution as described by Tournier et al. 8.

Results and Discussion

As seen in Fig 1, is apparent that the diffusion images produced after preprocessing steps are quite similar across all levels of acceleration, but it should be noted that there are subtle differences throughout the dataset that distinguish images collected without multiband acceleration and those collected with it. Differences in the data become more apparent when the parameters, such as FA, are compared as shown in Fig 2. The FA from several white matter voxels in an image with no multiband acceleration is plotted against the FA from those same voxels from an image with 2x acceleration (A) and 3x acceleration (B). It is clear that the values of FA are similar, but not identical.

The fiber orientation distribution functions generated using the constrained spherical deconvolution technique also vary. Fig 3 shows the FODs from a single voxel in a region of crossing fibers (B-D) from different amounts of multiband acceleration, and from a single voxel within the corpus callosum (E-G). Of note, the primary diffusion directions seem to remain in tact in both voxels, but the FODs in the region of crossing fibers appear to lose some of their angular resolution as the multiband acceleration increases. This observation is further validated in figure 4B, which plots each of the spherical harmonic coefficients used to create the FODs in Fig 3(B-D). Lower order coefficients are very similar for all levels of multiband acceleration, but begin to deviate from as the order increases. This pattern is also seen in the coefficients of the FODs in Fig 3(E-G), plotted in Fig 4A, but the coefficients do not vary as much until higher order coefficients.

Finally, the results of probabilistic tractography appear to remain largely intact despite some of the differences discussed above in earlier processing steps. While there are some minor variations between the tractography results (Fig 5), all of the major, and most minor pathways appear to be in tact. Track density imaging results (not shown) indicate that as more tracts are traced out, the more similar the tractography results are.

Conclusions

While there are subtle differences between data collected with and without multiband acceleration throughout all stages of data processing and analysis, it is difficult to determine how these differences truly affect the results of a diffusion study, given that there is no gold standard other than a sequence without multiband imaging. Despite some visually apparent differences in FODs calculated at some locations in the brain, tractography results seem to remain intact.

Acknowledgements

NIH Grant T32-EB000809

Department of Defense Grant W81XWH-12-1-0386

References

1. Feinberg D, Setsompop K. Ultra-fast MRI of the human brain with simultaneous multi-slice imaging. Journal of Magnetic Resonance. 2013; 229: 90-100.

2. Sotiropoulos S, Jbabdi S, et al. Advances in diffusion MRI acquisition and processing in the Human Connectome Project. NeuroImage. 2013; 80: 125-143.

3. Andersson J, Skare S, Ashburner J. How to correct susceptibility distortions in spin-echo echo-planar images: application to diffusion tensor imaging. NeuroImage. 2003; 20(2): 870-888.

4. Smith S.M., Jenkinson M, Woolrich M.W. et al. Advances in functional and structural MR image analysis and implementation as FSL. NeuroImage, 2004; 23(S1): 208-219.

5. Manjon J.V, Coupe P, et al. Diffusion Weighted Image Denoising using overcomplete Local PCA. PloS ONE 8(9).

6. Tournier J.D., Calamante F, Connelly A. Improved probabilistic streamlines tractography by 2nd order integration over fibre orientation distributions. Proceedings of the ISMRM, 2010, 1670.

7. Calamante F, Tournier J.D., Jackson G.D., Connelly A. Track-density imaging (TDI): Super-resolution white matter imaging using whole-brain track-density mapping. NeuroImage, 2010; 53: 1233-1243.

8. Tournier J.D, Calamante F, Connelly A. Robust determination of the fibre orientation distribution in diffusion MRI: Non-negativity constrained super-resolved spherical deconvolution.

Figures

Figure 1: Diffusion weighted image collected without multiband (A), with a multiband acceleration factor of 2 (B), and a multiband acceleration factor of 3 (C).

Figure 2: FA of voxels from the Callosum and and a region of crossing fibers from an image collected without acceleration plotted against the FA of the same voxels from an image collected with 2x acceleration (A), and the same voxels plotted against 3x accereration (B).

Figure 3: FA map (A), and FODs calculated at the indicated voxels for no accleration (B and F), 2x acceleration (C and E), and 3x acceleration (D and F).

Figure 4: Values of the FOD spherical harmonic coefficients for the FODs in figure 3B-D (A) and 3E-G (B). (C) demonstrates the average difference of spherical harmonic coefficients over many white matter voxels (lines) and the standard deviation of that difference (error bars).

Figure 5: Probablistic tractography results for no acceleration (A), 2x acceleration (B), and 3x acceleration (C). The white arrow indicates a bundle of fibers that is present in A and B, but not in C.



Proc. Intl. Soc. Mag. Reson. Med. 24 (2016)
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