Enhancing quality in Diffusion Tensor Imaging with anisotropic anomalous diffusion filter
Senra Filho, Antonio Carlos da Silva; Salmon, Carlos Ernesto Garrido; Santos, Antonio Carlos dos; Murta Junior, Luiz Otávio
Abstract
Introduction: Diffusion tensor imaging (DTI) is an important medical imaging modality that has been useful to the study of microstructural changes in neurological diseases. However, the image noise level is a major practical limitation, in which one simple solution could be the average signal from a sequential acquisition. Nevertheless, this approach is time-consuming and is not often applied in the clinical routine. In this study, we aim to evaluate the anisotropic anomalous diffusion (AAD) filter in order to improve the general image quality of DTI. Methods: A group of 20 healthy subjects with DTI data acquired (3T MR scanner) with different numbers of averages (N=1,2,4,6,8, and 16), where they were submitted to 2-D AAD and conventional anisotropic diffusion filters. The Relative Mean Error (RME), Structural Similarity Index (SSIM), Coefficient of Variation (CV) and tractography reconstruction were evaluated on Fractional Anisotropy (FA) and Apparent Diffusion Coefficient (ADC) maps. Results: The results point to an improvement of up to 30% of CV, RME, and SSIM for the AAD filter, while up to 14% was found for the conventional AD filter (p<0.05). The tractography revealed a better estimative in fiber counting, where the AAD filter resulted in less FA variability. Furthermore, the AAD filter showed a quality improvement similar to a higher average approach, i.e. achieving an image quality equivalent to what was seen in two additional acquisitions. Conclusions: In general, the AAD filter showed robustness in noise attenuation and global image quality improvement even in DTI images with high noise level.
Keywords
References
Aja-Fernandez S, Niethammer M, Kubicki M, Shenton ME, Westin C-F. Restoration of DWI data using a Rician LMMSE estimator. IEEE Transactions on Medical Imaging. 2008; 27(10):1389-403. PMid:18815091. http://dx.doi.org/10.1109/TMI.2008.920609.
Alexander AL, Lee JE, Lazar M, Field AS. Diffusion tensor imaging of the brain. Neurotherapeutics; the Journal of the American Society for Experimental NeuroTherapeutics. 2007; 4(3):316-29. PMid:17599699. http://dx.doi.org/10.1016/j.nurt.2007.05.011.
Bai J, Feng X-C. Fractional-order anisotropic diffusion for image denoising. IEEE Transactions on Image Processing. 2007; 16(10):2492-502. PMid:17926931. http://dx.doi.org/10.1109/TIP.2007.904971.
Basu S, Fletcher T, Whitaker R. Rician noise removal in diffusion tensor MRI. Lecture Notes in Computer Science. 2006; 4190:117-25. http://dx.doi.org/10.1007/11866565_15.
Boer R, Vrooman HA, van der Lijn F, Vernooij MW, Ikram MA, van der Lugt A, Breteler MM, Niessen WJ. White matter lesion extension to automatic brain tissue segmentation on MRI. NeuroImage. 2009; 45(4):1151-61. PMid:19344687. http://dx.doi.org/10.1016/j.neuroimage.2009.01.011.
Bullmore E, Barnes A, Bassett DS, Fornito A, Kitzbichler M, Meunier D, Suckling J. Generic aspects of complexity in brain imaging data and other biological systems. NeuroImage. 2009; 47(3):1125-34. PMid:19460447. http://dx.doi.org/10.1016/j.neuroimage.2009.05.032.
Chen B, Hsu EW. Noise removal in magnetic resonance diffusion tensor imaging. Magnetic Resonance in Medicine. 2005; 54(2):393-401. PMid:16032670. http://dx.doi.org/10.1002/mrm.20582.
Christiansen O, Lee T-M, Lie J, Sinha U, Chan TF. Total variation regularization of matrix-valued images. International Journal of Biomedical Imaging. 2007; 2007:1. PMid:18256729. http://dx.doi.org/10.1155/2007/27432.
Gonzalez RC, Woods RE. Digital Image Processing. New Jersey: Prentice Hall; 2008. v. 14.
Jenkinson M, Beckmann CF, Behrens TEJ, Woolrich MW, Smith SM. FSL. NeuroImage. 2012; 62(2):782-90. PMid:21979382. http://dx.doi.org/10.1016/j.neuroimage.2011.09.015.
Kiselev VG, Hahn KR, Auer DP. Is the brain cortex a fractal? NeuroImage. 2003; 20(3):1765-74. PMid:14642486. http://dx.doi.org/10.1016/S1053-8119(03)00380-X.
Lee JE, Chung MK, Alexander AL. Evaluation of anisotropic filters for diffusion tensor imaging. In: Proceedings of the 3rd IEEE International Symposium on Biomedical Imaging: Nano to Macro; 2006; Arlington, VA, USA. USA: IEEE; 2006. p. 77-80. v. 1-3.
Lin W, Jay Kuo C-C. Perceptual visual quality metrics: a survey. Journal of Visual Communication and Image Representation. 2011; 22(4):297-312. http://dx.doi.org/10.1016/j.jvcir.2011.01.005.
Ling J, Bovik AC. Smoothing low-SNR molecular images via anisotropic median-diffusion. IEEE Transactions on Medical Imaging. 2002; 21(4):377-84. PMid:12022625. http://dx.doi.org/10.1109/TMI.2002.1000261.
Malacarne L, Mendes R, Pedron I, Lenzi E. Nonlinear equation for anomalous diffusion: unified power-law and stretched exponential exact solution. Physical Review E: Statistical, Nonlinear, and Soft Matter Physics. 2001; 63(3 Pt 1):30101. PMid:11308617. http://dx.doi.org/10.1103/PhysRevE.63.030101.
Manjón JV, Carbonell-Caballero J, Lull JJ, García-Martí G, Martí-Bonmatí L, Robles M. MRI denoising using Non-Local Means. Medical Image Analysis. 2008; 12(4):514-23. PMid:18381247. http://dx.doi.org/10.1016/j.media.2008.02.004.
Martin-Fernandez M, Munoz-Moreno E, Cammoun L, Thiran JP, Westin CF, Alberola-Lopez C. Sequential anisotropic multichannel Wiener filtering with Rician bias correction applied to 3D regularization of DWI data. Medical Image Analysis. 2009; 13(1):19-35. PMid:18639481. http://dx.doi.org/10.1016/j.media.2008.05.004.
Maximov II, Farrher E, Grinberg F, , Shah NJ. Spatially variable Rician noise in magnetic resonance imaging. Medical Image Analysis. 2012; 16(2):536-48. PMid:22209560. http://dx.doi.org/10.1016/j.media.2011.12.002.
McGraw T, Vemuri BC, Chen Y, Rao M, Mareci T. DT-MRI denoising and neuronal fiber tracking. Medical Image Analysis. 2004; 8(2):95-111. PMid:15063860. http://dx.doi.org/10.1016/j.media.2003.12.001.
Moraschi M, Hagberg GE, Di Paola M, Spalletta G, Maraviglia B, Giove F. Smoothing that does not blur: effects of the anisotropic approach for evaluating diffusion tensor imaging data in the clinic. Journal of Magnetic Resonance Imaging. 2010; 31(3):690-7. PMid:20187214. http://dx.doi.org/10.1002/jmri.22040.
Perona P, Malik J. Scale-space and edge detection using anisotropic diffusion. IEEE Transactions on Pattern Analysis and Machine Intelligence. 1990; 12(7):629-39. http://dx.doi.org/10.1109/34.56205.
Pieper S, Halle M, Kikinis R. 3D slicer. In: Proceedings of the 1st IEEE International Symposium on Biomedical Imaging: From Nano to Macro; 2004; Arlington, Virginia, USA. USA: IEEE; 2004.
Schwämmle V, Nobre FD, Tsallis C. q-Gaussians in the porous-medium equation: stability and time evolution. The European Physical Journal B. 2008; 66(4):537-46. http://dx.doi.org/10.1140/epjb/e2008-00451-y.
Senra ACS Fo. Anomalous Filters module to 3D Slicer software [internet]. 3D Slicer Wiki; 2017. [cited 2017 Aug 21]. Available from: http://www.slicer.org/wiki/Documentation/Nightly/Extensions/AnomalousFilters
Senra AC Fo, Barbosa JHO, Salmon CEGS, Murta LO. Anisotropic anomalous diffusion filtering applied to relaxation time estimation in magnetic resonance imaging. In: Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society; 2014; Chicago, IL, USA. USA: IEEE; 2014. p. 3893-6.
Senra AC Fo, Duque JJ, Murta LO. Isotropic anomalous filtering in Diffusion-Weighted Magnetic Resonance Imaging. In: Proceedings of the Conference of the IEEE Engineering in Medicine and Biology Society. 2013; Osaka. USA: IEEE; 2013. p. 4022-5.
Senra AC Fo, Garrido Salmon CE, Murta LO Jr. Anomalous diffusion process applied to magnetic resonance image enhancement. Physics in Medicine and Biology. 2015; 60(6):2355-73. PMid:25716129. http://dx.doi.org/10.1088/0031-9155/60/6/2355.
Senra ACS, Murta LO Jr. Anomalous diffusion paradigm for image denoising process [internet]. Insight-Journal; 2017. [cited 2017 Aug 21]. Available from: http://www.insight-journal.org/browse/publication/980
Shenton ME, Hamoda HM, Schneiderman JS, Bouix S, Pasternak O, Rathi Y, Vu MA, Purohit MP, Helmer K, Koerte I, Lin AP, Westin CF, Kikinis R, Kubicki M, Stern RA, Zafonte R. A review of magnetic resonance imaging and diffusion tensor imaging findings in mild traumatic brain injury. Brain Imaging and Behavior. 2012; 6(2):137-92. PMid:22438191. http://dx.doi.org/10.1007/s11682-012-9156-5.
Tristán-Vega A, Aja-Fernández S. DWI filtering using joint information for DTI and HARDI. Medical Image Analysis. 2010; 14(2):205-18. PMid:20005152. http://dx.doi.org/10.1016/j.media.2009.11.001.
Tsallis C, Lenzi EK. Anomalous diffusion: nonlinear fractional Fokker-Planck equation. Chemical Physics. 2002; 284(1-2):341-7. http://dx.doi.org/10.1016/S0301-0104(02)00557-8.
Tsallis C. Introduction to nonextensive statistical mechanics: approaching a complex world. New York: Springer; 2009. v. 1.
Tsiotsios C, Petrou M. On the choice of the parameters for anisotropic diffusion in image processing. Pattern Recognition. 2013; 46(5):1369-81. http://dx.doi.org/10.1016/j.patcog.2012.11.012.
Tuch DS, Reese TG, Wiegell MR, Wedeen VJ. Diffusion MRI of complex neural architecture. Neuron. 2003; 40(5):885-95. PMid:14659088. http://dx.doi.org/10.1016/S0896-6273(03)00758-X.
Van den Heuvel MP, Hulshoff Pol HE. Exploring the brain network: a review on resting-state fMRI functional connectivity. European Neuropsychopharmacology. 2010; 20(8):519-34. PMid:20471808. http://dx.doi.org/10.1016/j.euroneuro.2010.03.008.
Wakana S, Caprihan A, Panzenboeck MM, Fallon JH, Perry M, Gollub RL, Hua K, Zhang J, Jiang H, Dubey P, Blitz A, van Zijl P, Mori S. Reproducibility of quantitative tractography methods applied to cerebral white matter. NeuroImage. 2007; 36(3):630-44. PMid:17481925. http://dx.doi.org/10.1016/j.neuroimage.2007.02.049.
Wang Z, Bovik AC, Sheikh HR, Simoncelli EP. Image quality assessment: from error visibility to structural similarity. IEEE Transactions on Image Processing. 2004; 13(4):600-12. PMid:15376593. http://dx.doi.org/10.1109/TIP.2003.819861.
Xia T, Baird C, Jallo G, Hayes K, Nakajima N, Hata N, Kazanzides P. An integrated system for planning, navigation and robotic assistance for skull base surgery. International Journal of Medical Robotics and Computer Assisted Surgery. 2008; 4(4):321-30. PMid:18803337. http://dx.doi.org/10.1002/rcs.213.
Xu Q, Anderson AW, Gore JC, Ding Z. Efficient anisotropic filtering of diffusion tensor images. Magnetic Resonance Imaging. 2010; 28(2):200-11. PMid:20061113. http://dx.doi.org/10.1016/j.mri.2009.10.001.
Zhang H, Awate SP, Das SR, Woo JH, Melhem ER, Gee JC, Yushkevich PA. A tract-specific framework for white matter morphometry combining macroscopic and microscopic tract features. Medical Image Analysis. 2010; 14(5):666-73. PMid:20547469. http://dx.doi.org/10.1016/j.media.2010.05.002.
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