A survey on the magnetic resonance image denoising methods

Biomedical Signal Processing and Control

Volumn 9, Issue 1, 2014, Pages 56-69

  Mohan, J ^a   Krishnaveni, V ^b   Guo, Yanhui ^c  

^a P A COLLEGE OF ENGINEERING AND TECHNOLOGY   (India)

^b PSG COLLEGE OF TECHNOLOGY   (India)

^c ST THOMAS UNIVERSITY   (United States)

Author keywords

Anisotropic diffusion; Contourlets; Curvelets; Denoising; Magnetic resonance imaging; Nonlocal mean; Wavelets

Indexed keywords

IMAGE ENHANCEMENT; MAGNETIC RESONANCE IMAGING; MAGNETISM; RESONANCE; SIGNAL TO NOISE RATIO; SURVEYS;

ANISOTROPIC DIFFUSION; CONTOURLETS; CURVELETS; DE-NOISING; NON-LOCAL MEANS; WAVELETS;

IMAGE DENOISING;

HYDROGEN;

ALGORITHM; ANATOMICAL CONCEPTS; DIFFUSION TENSOR IMAGING; FILTER; FILTRATION; FOURIER TRANSFORMATION; IMAGE QUALITY; IMAGE RECONSTRUCTION; MAGNETIC FIELD; MAGNETIC RESONANCE IMAGING DENOISING; MAGNETISM; MATHEMATICAL ANALYSIS; MAXIMUM LIKELIHOOD METHOD; MOTION; NUCLEAR MAGNETIC RESONANCE IMAGING; PRIORITY JOURNAL; PROTON NUCLEAR MAGNETIC RESONANCE; QUALITY CONTROL PROCEDURES; RADIOLOGICAL PARAMETERS; REVIEW; SIGNAL NOISE RATIO; WAVELET ANALYSIS;

EID: 84887870452     PISSN: 17468094     EISSN: 17468108     Source Type: Journal    
DOI: 10.1016/j.bspc.2013.10.007     Document Type: Review

References (108)

1. G. Wright Magnetic resonance imaging IEEE Signal Process. Mag. 14 1997 56 66
2. A.O. Rodriguez Principles of magnetic resonance imaging Rev. Mex. Fis. 50 2004 272 286 (Pubitemid 39051472)
3. R.M. Henkelman Measurement of signal intensities in the presence of noise in MR images Med. Phys. 12 1985 232 233 (Pubitemid 15089010)
4. H. Gudbjartsson, and S. Patz The Rician distribution of noisy MRI data Magn. Reson. Med. 34 1995 910 914
5. O. Dietrich, J.G. Raya, S.B. Reeder, M.F. Reiser, and S.O. Schoenberg Measurement of signal-to-noise ratios in MR images: influence of multichannel coils, parallel imaging, and reconstruction filters Magn. Reson. Imaging 2 6 2007 375 385 (Pubitemid 47257737)
6. O. Dietrich, J. Raya, S.B. Reeder, M. Ingrisch, M. Reiser, and S.O. Schoenberg Influence of multichannel combination, parallel imaging and other reconstruction techniques on MRI noise characteristics Magn. Reson. Imaging 26 2008 754 762
7. P. Thunberg, and P. Zetterberg Noise distribution in SENSE- and GRAPPA reconstructed images: a computer simulation study Magn. Reson. Imaging 25 2007 1089 1094 (Pubitemid 47239274)
8. J. Ashburner, and K.J. Friston Voxel-based morphometry - the methods Neuroimage 11 2000 805 821 (Pubitemid 30437668)
9. K.J. Friston, A.P. Holmes, K.J. Worsley, J.P. Poline, C.D. Firth, and R.S.J. Frackowiak Statistical parametric maps in functional imaging: a general linear approach Hum. Brain Mapp. 2 1995 189 210 (Pubitemid 124008664)
10. D. Van De Ville, M. Seghier, F. Lazeyras, T. Blu, and M. Unser WSPM: wavelet baset statistical parametric mapping Neuroimage 37 2007 1205 1217 (Pubitemid 47386037)
11. E.R. McVeigh, R.M. Henkelman, and M.J. Bronskill Noise and filtration in magnetic resonance imaging Med. Phys. 12 1985 586 591 (Pubitemid 15248413)
12. P. Perona, and J. Malik Scale-space and edge detection using anisotropic diffusion IEEE Trans. Pattern Anal. Mach. Intell. 12 1990 629 639 (Pubitemid 20726016)
13. G. Gerig, O. Kubler, R. Kikinis, and F.A. Jolesz Nonlinear anisotropic filtering of MRI data IEEE Trans. Med. Imaging 11 1992 221 232 (Pubitemid 23615395)
14. G.Z. Yang, P. Burger, D.N. Firmin, and S.R. Underwood Structure adaptive anisotropic filtering for magnetic resonance image enhancement Proceedings of CAIP 1995 384 391
15. J. Sijbers, A.J. den Dekker, A. Van Der Linden, M. Verhoye, and D. Van Dyck Adaptive anisotropic noise filtering for magnitude MR data Magn. Reson. Imaging 17 1999 1533 1539
16. K. Murase, Y. Yamazaki, M. Shinohara, K. Kawakami, K. Kikuchi, H. Miki, T. Mochizuki, and J. Ikezoe An anisotropic diffusion method for denoising dynamic susceptibility contrast-enhanced magnetic resonance images Phys. Med. Biol. 46 2001 2713 2723 (Pubitemid 32982403)
17. J. Tang, Q. Sun, J. Liu, and Y. Cao An adaptive anisotropic diffusion filter for noise reduction in MR images Proceedings of IEEE International Conference on Mechatronics and Automation Harbin, China 2007 1299 1304
18. K. Krissian, and S. Aja-Fernández Noise driven anisotropic diffusion filtering of MRI IEEE Trans. Image Process. 18 2009 2265 2274
19. F. Zhang, and L. Ma MRI denoising using the anisotropic coupled diffusion equations Proceedings of IEEE 3rd International Conference on Biomedical Engineering and Informatics Yantai 2010 397 401
20. Y.L. You, and M. Kaveh Fourth-order partial differential equation for noise removal IEEE Trans. Image Process. 9 2000 1723 1730
21. M. Lysaker, A. Lundervold, and T. Xue-Cheng Noise removal using fourth-order partial differential equation with applications to medical magnetic resonance images in space and time IEEE Trans. Image Process. 12 2003 1579 1590
22. B. Lu, C. Deng, Q. Liu, and J. Li Four order adaptive PDE method for MRI denoising Proceedings of IEEE 3rd International Conference on Bioinformatics and Biomedical Engineering Beijing 2009 1 4
23. J. Rajan, B. Jeurissen, J. Sijbers, and K. Kannan Denoising magnetic resonance images using fourth order complex diffusion Proceedings of IEEE 13th International Machine Vision and Image Processing Conference Dublin 2009 123 127
24. A. Samsonov, and C. Johnson Noise-adaptive nonlinear diffusion filtering of MR images with spatially varying noise levels Magn. Reson. Med. 52 2004 798 806 (Pubitemid 39314982)
25. A. Buades, B. Coll, and J.M. Morel A review of image denoising algorithms, with a new one Multiscale Model. Simul. 4 2005 490 530 (Pubitemid 43890582)
26. J.V. Manjon, M. Robles, and N.A. Thacker Multispectral MRI de-noising using non-local means Med. Image Understand. Anal. (MIUA) 2007 41 46
27. J.V. Manjón, J. Carbonell-Caballero, J.J. Lull, G. García-Martí, L. Martí-Bonmatí, and M. Robles MRI denoising using non-local means Med. Image Anal. 12 2008 514 523
28. P. Coupe, P. Yger, and C. Barillot Fast non local means denoising for MR images Proceedings at the 9th International Conference on Medical Image Computing and Computer assisted Intervention (MICCAI) Copenhagen 2006 33 40 (Pubitemid 44609201)
29. P. Coupe, P. Yger, S. Prima, P. Hellier, C. Kervrann, and C. Barillot An optimized blockwise nonlocal means denoising filter for 3-D magnetic resonance images IEEE Trans. Med. Imaging 27 2008 425 441 (Pubitemid 351479137)
30. P. Coupe, P. Hellier, S. Prima, C. Kervrann, and C. Barillot 3D wavelet subbands mixing for image denoising Int. J. Biomed. Imaging 2008 10.1155/2008/590183 Article ID 590183 (Pubitemid 351701945)
31. N. Wiest-Daesslé, S. Prima, P. Coupé, S.P. Morrissey, and C. Barillot Nonlocal means variants for denoising of diffusion-weighted and diffusion tensor MRI Med. Image Comput. Comput. Assist. Interv. 2007 344 351
32. N. Wiest-Daesslé, S. Prima, P. Coupé, S.P. Morrissey, and C. Barillot Rician noise removal by non-local means filtering for low signal-to-noise ratio MRI: applications to DT-MRI Med. Image Comput. Comput. Assist. Interv. 2008 171 179
33. Y. Gal, A.J.H. Mehnert, A.P. Bradley, K. McMahon, D. Kennedy, and S. Crozier Denoising of dynamic contrast-enhanced mr images using dynamic nonlocal means IEEE Trans. Med. Imaging 29 2009 302 310
34. H. Liu, C. Yang, N. Pan, E. Song, and R. Green Denoising 3D MR images by the enhanced non-local means filter for Rician noise Magn. Reson. Imaging 28 2010 1485 1496
35. J. Hu, Y. Pu, X. Wu, Y. Zhang, and J. Zhou Improved DCT-based nonlocal means filter for MR images denoising Comput. Math. Methods Med. 2012 14 Article ID 232685
36. J.V. Manjón, P. Coupe, L. Martí-Bonmatí, D.L. Collins, and M. Robles Adaptive non-local means denoising of MR images with spatially varying noise levels Magn. Reson. Imaging 31 2010 192 203
37. J.V. Manjón, P. Coupe, A. Buades, D.L. Collins, and M. Robles New methods for MRI denoising based on sparseness and self-similarity Med. Image Anal. 16 2012 18 27
38. P. Coupe, J.V. Manjón, M. Robles, and D.L. Collins Adaptive multiresolution nonlocal means filter for 3D MR image denoising IET Image Process. 6 2012 558 568
39. C. Tomasi, and R. Manduchi Bilateral filtering for gray and color images, Presented at the 6th Int. Conf. Comput. Vis., Bombay, India 1998 839 846
40. S.A. Walker, D. Miller, and J. Tanabe Bilateral spatial filtering: refining methods for localizing brain activation in the presence of parenchymal abnormalities Neuroimage 33 2006 564 569 (Pubitemid 44485550)
41. J. Xie, P.A. Heng, and M. Shah Image diffusion using saliency bilateral filter IEEE Trans. Inform. Technol. Biomed. 12 2008 768 771
42. G. Hamarneh, and J. Hradsky Bilateral filtering of diffusion tensor magnetic resonance images IEEE Trans. Image Process. 16 2007 1723 1730
43. W.C.K. Wong, and A.C.S. Chung A nonlinear and non-iterative noise reduction technique for medical images: concept and methods comparison Elsevier - Int. Congr. Ser. 1268 2004 171 176
44. W.C.K. Wong, A.C.S. Chung, and S.C.H. Yu Trilateral filter for biomedical images Proceedings of ISBI 2004 820 823
45. D.L. Donoho, and I.M. Johnstone Ideal spatial adaptation via wavelet shrinkage Biometrika 81 1994 425 455
46. D.L. Donoho De-noising by soft-thresholding IEEE Trans. Inform. Theory 41 1995 613 627
47. J.B. Weaver, Y. Xu, D.M. Healy, and L.D. Cromwell Filtering noise from images with wavelet transforms Magn. Reson. Imaging 21 1991 288 295
48. R.D. Nowak Wavelet-based Rician noise removal for magnetic resonance imaging IEEE Trans. Image Process. 8 1999 1408 1419 (Pubitemid 30524087)
49. J.C. Wood, and K.M. Johnson Wavelet packet denoising of magnetic resonance images: importance of Rician noise at low SNR Magn. Reson. Med. 41 1999 631 635 (Pubitemid 29152910)
50. S. Zaroubi, and G. Goelman Complex denoising of MR data via wavelet analysis: application for functional MRI Magn. Reson. Imaging 18 2000 59 68 (Pubitemid 30036142)
51. M.E. Alexander, R. Baumgartner, A.R. Summers, C. Windischberger, M. Klarhoefer, E. Moser, and R.L. Somorjai A wavelet-based method for improving signal-to-noise ratio and contrast in MR images Magn. Reson. Imaging 18 2000 169 180 (Pubitemid 30165135)
52. A. Pizurica, W. Philips, I. Lemahieu, and M. Acheroy A versatile wavelet domain noise filtration technique for medical imaging IEEE Trans. Med. Imaging 22 2003 323 331
53. P. Bao, and L. Zhang Noise reduction for magnetic resonance images via adaptive multiscale products thresholding IEEE Trans. Med. Imaging 22 2003 1089 1099
54. G. Placidi, M. Alecci, and A. Sotgiu Post-processing noise removal algorithm for magnetic resonance imaging based on edge detection and wavelet analysis Phys. Med. Biol. 48 2003 1987 1995 (Pubitemid 36874804)
55. H. Yu, and L. Zhao An efficient denoising procedure for magnetic resonance imaging Proceedings of IEEE 2nd International Conference on Bioinformatics and Biomedical Engineering 2008 2628 2630
56. L. Tan, and L. Shi Multiwavelet-based estimation for improving magnetic resonance images Proceedings of IEEE Conference 2009 1 5
57. Z.Q. Wu, J.A. Ware, and J. Jiang Wavelet-based Rayleigh background removal in MRI IEEE Electron. Lett. 39 2003 603 605
58. P. Mrazek, J. Weickert, and G. Steidl Diffusion inspired shrinkage functions and stability results for wavelet denoising Int. J. Comput. Vis. 64 2005 171 186 (Pubitemid 41314649)
59. V.G. Ashamol, G. Sreelekha, and P.S. Sathidevi Diffusion-based image denoising combining curvelet and wavelet Proceedings of 15th International Conference on Systems, signals and Image processing Bratislava 2008 169 172
60. C.S. Anand, and J.S. Sahambi MRI denoising using bilateral filter in redundant wavelet domain Proceedings of IEEE Region 10 Conference 2008 1 6
61. C.S. Anand, and J.S. Sahambi Wavelet domain non-linear filtering for MRI denoising Magn. Reson. Imaging 28 2010 842 861
62. X. Yang, and B. Fei A wavelet multiscale denoising algorithm for magnetic resonance (MR) images Meas. Sci. Technol. 22 2011 12 Article ID 025803
63. F. Luisier, T. Blu, and P.J. Wolfe A CURE for noisy magnetic resonance images: Chi-square unbiased risk estimation IEEE Trans. Image Process. 21 2012 3454 3466
64. M. Unser Splines: a perfect fit for signal and image processing IEEE Signal Process. Mag. 16 1999 22 38 (Pubitemid 129604862)
65. M. Unser, and T. Blu Fractional splines and wavelets SIAM Rev. 42 2000 43 67
66. A.M. Wink, and J.B.T.M. Roerdink Denoising functional MR images: a comparison of wavelet denoising and Gaussian smoothing IEEE Trans. Med. Imaging 23 2004 374 387
67. I. Delakis, O. Hammad, and R.I. Kitney Wavelet-based de-noising algorithm for images acquired with parallel magnetic resonance imaging (MRI) Phys. Med. Biol. 52 2007 3741 3751 (Pubitemid 46908592)
68. E.J. Candès, D.L. Donoho, Curvelets. Available from: http://www-stat.stanford.edu/∼donoho/Reports/1999/Curvelets.pdf.
69. J.L. Starck, E.J. Candes, and D.L. Donoho The Curvelet transform for image denoising IEEE Trans. Image Process. 11 2002 670 684 (Pubitemid 34814390)
70. M.N. Do, and M. Vetterli The contourlet transform: an efficient directional multiresolution image representation IEEE Trans. Image Process. 14 2005 2091 2106 (Pubitemid 41781516)
71. P. Latha, and R. Subramanian Medical image denoising using X-lets Proceedings of Annual IEEE India Conference New Delhi 2006 1 6
72. J. Ma, and G. Plonka Combined curvelet shrinkage and nonlinear anisotropic diffusion IEEE Trans. Image Process. 16 2007 2198 2206 (Pubitemid 47316667)
73. G. McGibney, and M. Smith Unbiased signal-to-noise ratio measure for magnetic resonance images Med. Phys. 20 1993 1077 1078 (Pubitemid 23249853)
74. J. Sijbers, A.J. den Dekker, J. Van Audekerke, M. Verhoye, and D. Van Dyck Estimation of the noise in magnitude MR images Magn. Reson. Imaging 16 1998 87 90 (Pubitemid 28020809)
75. J. Sijbers, A.J. den Dekker, P. Scheunders, and D. Van Dyck Maximumlikelihood estimation of Rician distribution parameters IEEE Trans. Med. Imaging 17 1998 357 361 (Pubitemid 128747690)
76. J. Sijbers, and A.J. den Dekker Maximum likelihood estimation of signal amplitude and noise variance form MR data Magn. Reson. Imaging 51 2004 586 594 (Pubitemid 38298673)
77. L. Jiang, and W. Yang Adaptive magnetic resonance image denoising using mixture model and wavelet shrinkage C. Sun, H. Talbot, S. Ourselin, T. Adriaansen, Proceedings of VIIth Digital Image Computing: Techniques and Applications 2003 The University of Queensland Sydney, Australia. St. Lucia, Australia 831 838
78. J. Sijbers, D. Poot, A.J. den Dekker, and W. Pintjenst Automatic estimation of the noise variance from the histogram of a magnetic resonance image Phys. Med. Biol. 52 2007 1335 1348 (Pubitemid 46646391)
79. L. He, and I.R. Greenshields A nonlocal maximum likelihood estimation method for Rician noise reduction in MR images IEEE Trans. Med. Imaging 28 2009 165 172
80. J. Rajan, D. Poot, J. Juntu, and J. Sijbers Noise measurement from magnitude MRI using local estimates of variance and skewness Phys. Med. Biol. 55 2010 441 449
81. J. Rajan, B. Jeurissen, M. Verhoye, J.V. Audekerke, and J. Sijbers Maximum likelihood estimation-based denoising of magnetic resonance images using restriced local neighborhoods Phys. Med. Biol. 56 2011 5221 5234
82. J. Rajan, J. Veraat, J.V. Audekerke, M. Verhoye, and J. Sijbers Nonlocal maximum likelihood estimation method for denoising multiple-coil magnetic resonance images Magn. Reson. Imaging 30 2012 1512 1518
83. S. Aja-Fernández, C. Alberola-López, and C.F. Westin Noise and signal estimation in magnitude MRI and Rician distributed images: a LMMSE approach IEEE Trans. Image Process. 17 2008 1383 1398
84. S. Aja-Fernández, M. Niethammer, M. Kubicki, M.E. Shenton, and C.F. Westin Restoration of DWI data using a Rician LMMSE estimator IEEE Trans. Med. Imaging 27 2008 1389 1403
85. H.M. Golshan, and R.P.R. Hasanzedeh A non-local Rician noise reduction approach for 3-D magnitude magnetic resomnance images Proceedings of 7th Iranian Machine Vision and Image Processing 2011 1 5
86. H.M. Golshan, R.P.R. Hasanzedeh, and S.C. Yousefzadeh An MRI denoising method using data redundancy and local SNR estimation Magn. Reson. Imaging 31 2013 1206 1217
87. D. Tisdall, and M.S. Atkins MRI denoising via phase error estimation Proc. SPIE 5747 2005 646 654 (Pubitemid 41146705)
88. S.P. Awate, and R.T. Whitaker Nonparametric neighborhood statistics for MRI denoising Information Processing in Medical Imaging, Lecture Notes Computer Science vol. 3565 2005 Springer New York
89. S.P. Awate, and R.T. Whitaker Feature-preserving MRI denoising: a nonparametric empirical Bayes approach IEEE Trans. Med. Imaging 26 2007 1242 1255 (Pubitemid 47383445)
90. E. Lopez-Rubio, and M.N. Florentin-Nunez Kernel regression based feature extraction for 3D MR image denoising Med. Image Anal. 15 2011 498 513
91. A. Wong, and A.K. Mishra Quasi-Monte carlo estimation approach for denoising MRI data based on regional statistics IEEE Trans. Biomedical Eng. 58 2011 1076 1083
92. S.M.G. Monir, and M.Y. Siyal Denoising functional magnetic resonance imaging time-series using anisotropic spatial averaging Biomed. Signal Process. Control 4 2008 16 25
93. P. Coupe, J.V. Manjon, E. Gedamu, D. Arnold, M. Robles, and D.L. Collins An object-based method for Rician noise estimation in MR images Med. Image Comput. Comput. Assist. Interv. 2009 601 608
94. P. Coupe, J.V. Manjon, E. Gedamu, D. Arnold, M. Robles, and D.L. Collins Robust Rician noise estimation for MR images Med. Image Anal. 2010 483 493
95. J. Luo, Y. Zhu, and I.E. Magnin Denoising by averaging reconstructed images: application to magnetic resonance images IEEE Trans. Biomed. Eng. 56 2009 666 674
96. J. Luo, Y. Zhu, and B. Hiba Medical image denoising using one-dimensional singularity function model Comput. Med. Imaging Graph. 34 2010 167 176
97. D.J. Larkman, and R.G. Nunes Parallel magnetic resonance imaging Phys. Med. Biol. 52 2007 15 55
98. P.B. Roemer, W.A. Edelstein, C.E. Hayes, S.P. Souza, and O.M. Mueller The NMR phased array Magn. Reson. Med. 16 1990 192 225
99. K.P. Pruessmann, M. Weiger, M.B. Scheidegger, and P. Boesiger SENSE: sensitivity encoding for fast MRI Magn. Reson. Med. 42 1999 952 962 (Pubitemid 29521486)
100. M.A. Griswold, P.M. Jakob, R.M. Heidemann, M. Nittka, V. Jellus, and J. Wang Generalized autocalibrating partially parallel acquisitions (GRAPPA) Magn. Reson. Med. 47 2002 1202 1210 (Pubitemid 34587412)
101. T.W. Redpath Commentary signal-to-noise ratio in MRI Br. J. Radiol. 71 1998 704 707
102. H. Zhu, Y. Li, J.G. Ibrahim, X. Shi, H. An, Y. Chen, W. Gao, W. Lin, D.B. Rowe, and B.S. Peterson Regression models for identifying noise sources in magnetic resonance imaging J. Am. Stat. Assoc. 104 2009 623 637
103. A. Macovski Noise in MRI Magn. Reson. Med. 36 1996 494 497 (Pubitemid 126789497)
104. C.D. Constantinides, E. Atalar, and E.R. McVeigh Signal-to-noise measurements in magnitude images from NMR phased arrays Magn. Reson. Med. 38 1997 852 857 (Pubitemid 27467727)
105. S. Aja-Fernandez, A. Tristan-Vega, and C. Alberola-Lopez Noise estimation in single and multiple coil MR data based on statistical models Magn. Reson. Imaging 27 2009 1397 1409
106. J. Prinosil, Z. Smekal, and K. Bartusek Wavelet thresholding techniques in MRI domain Proceedings of IEEE International Conference on Biosciences Cancun 2010 58 63
107. Z. Wang, A.C. Bovik, H.R. Sheikh, and E.P. Simoncell Image quality assessment: from error visibility to structural similarity IEEE Trans. Image Process. 13 2004 600 612
108. R.K. Kwan, A.C. Evans, and G.B. Pike MRI simulation based evaluation of image processing and classification methods IEEE Trans. Med. Imaging 18 1999 1085 1097 (Pubitemid 30557282)