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2019 | OriginalPaper | Chapter

Spherical Harmonic Residual Network for Diffusion Signal Harmonization

Authors : Simon Koppers, Luke Bloy, Jeffrey I. Berman, Chantal M. W. Tax, J. Christopher Edgar, Dorit Merhof

Published in: Computational Diffusion MRI

Publisher: Springer International Publishing

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Abstract

Diffusion imaging is an important method in the field of neuroscience, as it is sensitive to changes within the tissue microstructure of the human brain. However, a major challenge when using MRI to derive quantitative measures is that the use of different scanners, as used in multi-site group studies, introduces measurement variability. This can lead to an increased variance in quantitative metrics, even if the same brain is scanned. Contrary to the assumption that these characteristics are comparable and similar, small changes in these values are observed in many clinical studies, hence harmonization of the signals is essential. In this paper, we present a method that does not require additional preprocessing, such as segmentation or registration, and harmonizes the signal based on a deep learningresidual network. For this purpose, a training database is required, which consist of the same subjects, scanned on different scanners. The results show that harmonized signals are significantly more similar to the ground truth signal compared to no harmonization, but also improve in comparison to another deep learning method. The same effect is also demonstrated in commonly used metrics derived from the diffusion MRI signal.

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Literature
1.
go back to reference Andersson, J.L., Skare, S., Ashburner, J.: How to correct susceptibility distortions in spin-echo echo-planar images: application to diffusion tensor imaging. Neuroimage 20(2), 870–888 (2003)CrossRef Andersson, J.L., Skare, S., Ashburner, J.: How to correct susceptibility distortions in spin-echo echo-planar images: application to diffusion tensor imaging. Neuroimage 20(2), 870–888 (2003)CrossRef
2.
go back to reference Andersson, J.L., Sotiropoulos, S.N.: An integrated approach to correction for off-resonance effects and subject movement in diffusion MR imaging. Neuroimage 125, 1063–1078 (2016)CrossRef Andersson, J.L., Sotiropoulos, S.N.: An integrated approach to correction for off-resonance effects and subject movement in diffusion MR imaging. Neuroimage 125, 1063–1078 (2016)CrossRef
3.
go back to reference Bengio, Y., Simard, P., Frasconi, P.: Learning long-term dependencies with gradient descent is difficult. IEEE Trans. Neural Netw. 5(2), 157–166 (1994)CrossRef Bengio, Y., Simard, P., Frasconi, P.: Learning long-term dependencies with gradient descent is difficult. IEEE Trans. Neural Netw. 5(2), 157–166 (1994)CrossRef
5.
go back to reference Golkov, V., Dosovitskiy, A., Sperl, J.I., Menzel, M.I., Czisch, M., Sämann, P., Brox, T., Cremers, D.: q-space deep learning for twelve-fold shorter and model-free diffusion MRI scans. IEEE Trans. Med. Imaging 35(5), 1344–1351 (2016)CrossRef Golkov, V., Dosovitskiy, A., Sperl, J.I., Menzel, M.I., Czisch, M., Sämann, P., Brox, T., Cremers, D.: q-space deep learning for twelve-fold shorter and model-free diffusion MRI scans. IEEE Trans. Med. Imaging 35(5), 1344–1351 (2016)CrossRef
6.
go back to reference He, K., Zhang, X., Ren, S., Sun, J.: Deep residual learning for image recognition. In: CVPR, pp. 770–778 (2016) He, K., Zhang, X., Ren, S., Sun, J.: Deep residual learning for image recognition. In: CVPR, pp. 770–778 (2016)
8.
go back to reference Klein, S., Staring, M., Murphy, K., Viergever, M.A., Pluim, J.P.: elastix: a toolbox for intensity-based medical image registration. IEEE Trans. Med. Imaging 29(1), 196–205 (2010)CrossRef Klein, S., Staring, M., Murphy, K., Viergever, M.A., Pluim, J.P.: elastix: a toolbox for intensity-based medical image registration. IEEE Trans. Med. Imaging 29(1), 196–205 (2010)CrossRef
9.
go back to reference Koppers, S., Haarburger, C., Merhof, D.: Diffusion MRI signal augmentation: from single shell to multi shell with deep learning. In: CDMRI, pp. 61–70. Springer (2016) Koppers, S., Haarburger, C., Merhof, D.: Diffusion MRI signal augmentation: from single shell to multi shell with deep learning. In: CDMRI, pp. 61–70. Springer (2016)
10.
go back to reference Mirzaalian, H., Ning, L., Savadjiev, P., Pasternak, O., Bouix, S., Michailovich, O., Karmacharya, S., Grant, G., Marx, C.E., Morey, R.A., Flashman, L.A., George, M.S., McAllister, T.W., Andaluz, N., Shutter, L., Coimbra, R., Zafonte, R.D., Coleman, M.J., Kubicki, M., Westin, C.F., Stein, M.B., Shenton, M.E., Rathi, Y.: Multi-site harmonization of diffusion MRI data in a registration framework. Brain Imaging Behav. 12(1), 284–295 (2018). https://doi.org/10.1007/s11682-016-9670-yCrossRef Mirzaalian, H., Ning, L., Savadjiev, P., Pasternak, O., Bouix, S., Michailovich, O., Karmacharya, S., Grant, G., Marx, C.E., Morey, R.A., Flashman, L.A., George, M.S., McAllister, T.W., Andaluz, N., Shutter, L., Coimbra, R., Zafonte, R.D., Coleman, M.J., Kubicki, M., Westin, C.F., Stein, M.B., Shenton, M.E., Rathi, Y.: Multi-site harmonization of diffusion MRI data in a registration framework. Brain Imaging Behav. 12(1), 284–295 (2018). https://​doi.​org/​10.​1007/​s11682-016-9670-yCrossRef
11.
go back to reference Mirzaalian, H., de Pierrefeu, A., Savadjiev, P., Pasternak, O., Bouix, S., Kubicki, M., Westin, C.F., Shenton, M.E., Rathi, Y.: Harmonizing diffusion MRI data across multiple sites and scanners. In: Navab, N., Hornegger, J., Wells, W.M., Frangi, A. (eds.) Medical Image Computing and Computer-Assisted Intervention - MICCAI 2015, pp. 12–19. Springer International Publishing, Cham (2015)CrossRef Mirzaalian, H., de Pierrefeu, A., Savadjiev, P., Pasternak, O., Bouix, S., Kubicki, M., Westin, C.F., Shenton, M.E., Rathi, Y.: Harmonizing diffusion MRI data across multiple sites and scanners. In: Navab, N., Hornegger, J., Wells, W.M., Frangi, A. (eds.) Medical Image Computing and Computer-Assisted Intervention - MICCAI 2015, pp. 12–19. Springer International Publishing, Cham (2015)CrossRef
12.
go back to reference Tax, M.W., C., Grussu, F., Kaden, E., Ning, L., Rudrapatna, U., Evans, J., St-Jean, S., Leemans, A., Puch, S., Rowe, M., Rodrigues, P., Prĉkovska, V., Koppers, S., Merhof, D., Ghosh, A., Tanno, R., C Alexander, D., Charron, C., Kusmia, S., EJ Linden, D., K Jones, D., Veraart, J.: Cross-vendor and cross-protocol harmonisation of diffusion tensor imaging data: a comparative study. ISMRM-ESMRMB (2018). https://projects.iq.harvard.edu/cdmri2017 Tax, M.W., C., Grussu, F., Kaden, E., Ning, L., Rudrapatna, U., Evans, J., St-Jean, S., Leemans, A., Puch, S., Rowe, M., Rodrigues, P., Prĉkovska, V., Koppers, S., Merhof, D., Ghosh, A., Tanno, R., C Alexander, D., Charron, C., Kusmia, S., EJ Linden, D., K Jones, D., Veraart, J.: Cross-vendor and cross-protocol harmonisation of diffusion tensor imaging data: a comparative study. ISMRM-ESMRMB (2018). https://​projects.​iq.​harvard.​edu/​cdmri2017
13.
go back to reference Vollmar, C., Identical et al.: But not the same: Intra-site and inter-site reproducibility of fractional anisotropy measures on two 3.0 T scanners. Neuroimage 51(4), 1384–1394 (2010)CrossRef Vollmar, C., Identical et al.: But not the same: Intra-site and inter-site reproducibility of fractional anisotropy measures on two 3.0 T scanners. Neuroimage 51(4), 1384–1394 (2010)CrossRef
14.
go back to reference Zhang, Y., et al.: Segmentation of brain MR images through a hidden Markov random field model and the expectation-maximization algorithm. IEEE Trans. Med. Imaging 20(1), 45–57 (2001)CrossRef Zhang, Y., et al.: Segmentation of brain MR images through a hidden Markov random field model and the expectation-maximization algorithm. IEEE Trans. Med. Imaging 20(1), 45–57 (2001)CrossRef
Metadata
Title
Spherical Harmonic Residual Network for Diffusion Signal Harmonization
Authors
Simon Koppers
Luke Bloy
Jeffrey I. Berman
Chantal M. W. Tax
J. Christopher Edgar
Dorit Merhof
Copyright Year
2019
DOI
https://doi.org/10.1007/978-3-030-05831-9_14

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