Compartment models of the diffusion MR signal in brain white matter: A taxonomy and comparison

NeuroImage

Volumn 59, Issue 3, 2012, Pages 2241-2254

  Panagiotaki, Eleftheria ^a   Schneider, Torben ^b   Siow, Bernard ^a   Hall, Matt G ^a   Lythgoe, Mark F ^a   Alexander, Daniel C ^a  

^a UNIVERSITY COLLEGE LONDON   (United Kingdom)

^b UNIVERSITY COLLEGE LONDON   (United Kingdom)

Author keywords

Axon diameter; Compartment models; Diffusion MRI; Microstructure imaging; White matter

Indexed keywords

ANIMAL TISSUE; ARTICLE; BRAIN TISSUE; COMPARTMENT MODEL; CONTROLLED STUDY; DIFFUSION; DIFFUSION WEIGHTED IMAGING; IMAGE ANALYSIS; MALE; MATHEMATICAL ANALYSIS; NERVE FIBER; NONHUMAN; PRIORITY JOURNAL; RADIOLOGICAL PARAMETERS; RAT; TAXONOMY; WHITE MATTER;

ALGORITHMS; ANIMALS; AXONS; BAYES THEOREM; BRAIN; BRAIN CHEMISTRY; CLASSIFICATION; DIFFUSION TENSOR IMAGING; IMAGE PROCESSING, COMPUTER-ASSISTED; MALE; MODELS, ANATOMIC; MODELS, STATISTICAL; RATS; RATS, SPRAGUE-DAWLEY; TERMINOLOGY AS TOPIC; TISSUE FIXATION; WATER;

EID: 84855432054     PISSN: 10538119     EISSN: 10959572     Source Type: Journal    
DOI: 10.1016/j.neuroimage.2011.09.081     Document Type: Article

References (50)

1. Aboitiz F., Scheibel A.B., Fisher R.S., Zaidel E. Fiber composition of the human corpus callosum. Brain Res. 1992, 598:143-153.
2. Alexander D.C. A general framework for experiment design in diffusion MRI and its application in measuring direct tissue-microstructure features. Magn. Reson. Med. 2008, 60:439-448.
3. Alexander D.C. Modelling, fitting and sampling in diffusion MRI. Visualization and Processing of Tensor Fields 2009, 3-20.
4. Alexander D.C., Barker G.J. Optical imaging parameters for fibre-orientation estimation in diffusion MRI. Neuroimage 2005, 27:357-367.
5. Alexander D.C., Hubbard P.L., Hall M.G., Moore E.A., Ptito M., Parker G.J.M., Dyrby T.B. Orientationally invariant indices of axon diameter and density from diffusion MRI. Neuroimage 2010, 52:1374-1389.
6. Assaf Y., Basser P.J. Composite hindered and restricted model of diffusion (CHARMED) MR imaging of the human brain. Neuroimage 2005, 27(1):48-58.
7. Assaf Y., Freidlin R.Z., Rohde G.K., Basser P.J. New modeling and experimental framework to characterize hindered and restricted water diffusion in brain white matter. Magn. Reson. Med. 2004, 52(5):965-978.
8. Assaf Y., Blumenfeld-Katzir T., Yovel Y., Basser P.J. Axcaliber: a method for measuring axon diameter distribution from diffusion MRI. Magn. Reson. Med. 2008, 59:1347-1354.
9. Barazany D., Basser P., Assaf Y. In-vivo measurement of the axon diameter distribution in the corpus callosum of a rat brain. Brain 2009, 132:1210-1220.
10. Basser P.J., Jones D.K. Diffusion-tensor MRI: theory, experimental design and data analysis - a technical review. NMR Biomed. 2002, 15:456-467.
11. Basser P.J., Mattiello J., LeBihan D. MR diffusion tensor spectroscopy and imaging. Biophys. J. 1994, 66:259-267.
12. Behrens T.E.J., Woolrich M.W., Jenkinson M., Johansen H. Characterization and propagation of uncertainty in diffusion-weighted MR imaging. Magn. Reson. Med. 2003, 50:1077-1088.
13. Callaghan P.T., Stepisnik J. Frequency-domain analysis of spin motion using modulated-gradient NMR. J. Magn. Reson., Ser. A 1995, 117:118-122.
14. Clark C.A., Le Bihan D. Water diffusion compartmentation and anisotropy at high b values in the human brain. Magn. Reson. Med. 2000, 44(6):852-859.
15. Clayden J., Nagy Z., Hall M.G., Clark C., Alexander D.C. Active Imaging with Dual Spin-Echo Diffusion MRI 2009, 264-275.
16. Cook P.A., Bai Y., Nedjati-Gilani S., Seunarine K.K., Hall M.G., Parker G.J., Alexander D.C. Camino: Open source diffusion-MRI reconstruction and processing. Proc 14th Scientific Meeting of ISMRM, Seattle, WA, USA 2006, 2759.
17. Does M.D., Parsons E.C., Gore J.C. Oscillating gradient measurements of water diffusion in normal and globally ischemic rat brain. Magn. Reson. Med. 2003, 49(2):206-215.
18. Douglass D.C., McCall D.W. Diffusion in paraffin hydrocarbons. J. Phys. Chem. 1958, 62:1102.
19. Drobnjak I., Siow B., Alexander D.C. Optimizing gradient waveforms for microstructure sensitivity in diffusion-weighted MR. J. Magn. Reson. 2010, 206:41-51.
20. Dyrby T.B., Baaré W.F.C., Alexander D.C., Jelsing J., Garde E., Søgaard L.V. An ex vivo imaging pipeline for producing high-quality and high-resolution diffusion-weighted imaging datasets. Hum. Brain Mapp. 2011, 32:544-563.
21. Gelderen P.V., Despres D., Zijl P.C.M.V., Moonen C.T.W. Evaluation of restricted diffusion in cylinders phosphocreatine in rabbit leg muscle. J. Magn. Reson. B 1994, 103:255-260.
22. He X., Yablonskiy D.A. Biophysical mechanisms of phase contrast in gradient echo mri. Proc. Natl. Acad. Sci. 2009, 106(32):13558.
23. Jespersen S., Kroenke C., Østergaard L., Ackerman J., Yablonskiy D. Modeling dendrite density from magnetic resonance diffusion measurements. Neuroimage 2007, 34(4):1473-1486.
24. Jespersen S.N., Bjarkam C.R., Nyengaard J.R., Chakravarty M.M., Hansen B., Vosegaard T., Østergaard L., Yablonskiy D., Nielsen N.C., Vestergaard-Poulsen P. Neurite density from magnetic resonance diffusion measurements at ultrahigh field: comparison with light microscopy and electron microscopy. Neuroimage 2010, 49(1):205-216.
25. Jones D.K., Basser P.J. "Squashing peanuts and smashing pumpkins": how noise distorts diffusion-weighted MR data. Magn. Reson. Med. 2004, 52(5):979-993.
26. Kaden E., Knösche T.R., Anwander A. Parametric spherical deconvolution: inferring anatomical connectivity using diffusion MR imaging. Neuroimage 2007, 37(2):474-488.
27. Koch M., Finsterbusch J. Compartment size estimation with double wave vector diffusion-weighted imaging. Magn. Reson. Med. 2008, 60(1):90-101.
28. McNab J., Jbabdi S., Deoni S., Douaud G., Behrens T., Miller K. High resolution diffusion-weighted imaging in fixed human brain using diffusion-weighted steady state free precession. Neuroimage 2009, 46(3):775-785.
29. Mitra P.P. Multiple wave-vector extensions of the nmr pulsed-field-gradient spin-echo diffusion measurement. Phys. Rev. B. Condens Matter 1995, 51:15074-15078. (Jun), (URL). http://link.aps.org/doi/10.1103/PhysRevB.51.15074.
30. Murday J.S., Cotts R.M. Self-diffusion coefficient of liquid lithium. J. Chem. Phys. 1984, 48:4938-4945.
31. Neuman C.H. Spin echo of spins diffusing in a bounded medium. J. Chem. Phys. 1974, 60:4508-4511.
32. Niendorf T., Dijkhuizen R., Norris D.G., van Lookeren Campagne M., Nicolay K. Biexponential diffusion attenuation in various states of brain tissue: implications for diffusion-weighted imaging. Magn. Reson. Med. 1996, 36(6):847-857.
33. Panagiotaki, E., 2011. Geometric models of brain white matter for microstructure imaging with diffusion MRI. Ph.D. thesis, Department of Computer Science, University College London.
34. Panagiotaki E., Fonteijn H., Siow B., Hall M.G., Price A., Lythgoe M.F., Alexander D.C. Two-compartment models of the diffusion MR signal in brain white matter. Lecture Notes in Computer Science 2009, 329-336.
35. Parker G.J.M., Alexander D.C. Probabilistic Monte Carlo based mapping of cerebral connections utilising whole-brain crossing fibre information. Proc of 18th IPMI conference (Ambleside) 2003, 684-695. Springer: LNCS 2732.
36. Peled S., Friman O., Jolesz F., Westin C.F. Geometrically constrained two-tensor model for crossing tracts in dwi. Magn. Reson. Imaging 2006, 24(9):1263-1270.
37. Press W., Flannery B., Teukolsky S. WT Vetterling WT Numerical Recipes in C 1988.
38. Price W.S. Pulse-Field Gradient Nuclear Magnetic Resonance as a tool for studying translational diffusion: part 1. basic theory. Magn. Reson. Educ. J. 1997, 9:299-336.
39. Reese T., Heid O., Weisskoff R., Wedeen V. Reduction of eddy-current-induced distortion in diffusion MRI using a twice-refocused spin echo. Magn. Reson. Med. 2003, 49(1):177-182.
40. Schwarz G. Estimating the dimension of a model. Ann. Stat. 1978, 6:461-464.
41. Seunarine K.K., Alexander D.C. Multiple Fibers: Beyond the Diffusion Tensor 2009, Academic Press.
42. Shemesh N., Ozarslan E., Basser P.J., Cohen Y. Measuring small compartmental dimensions with low-q angular double-pgse nmr: the effect of experimental parameters on signal decay. J. Magn. Reson. 2009, 198(1):15-23.
43. Shepherd T., Thelwall P., Stanisz G., Blackband S. Aldehyde fixative solutions alter the water relaxation and diffusion properties of nervous tissue. Magn. Reson. Med. 2009, 62(1):26-34.
44. Sherbondy A.J., Rowe M., Alexander D.C. MicroTrack: an algorithm for concurrent projectome and microstructure estimation. Lecture Notes in Computer Science 2010, 183-190.
45. Stanisz G.J., Szafer A., Wright G.A., Henkelman R.M. An analytical model of restricted diffusion in bovine optic nerve. Magn. Reson. Med. 1997, 37:103-111.
46. Stepisnik J. Time-dependent self-diffusion by NMR spin-echo. Physica B 1993, 183(4):343-350.
47. Tuch D.S., Reese T.G., Wiegell M.R., Belliveau N.M.J.W., Wedeen V.J. High angular resolution diffusion imaging reveals intravoxel white matter fibre heterogeneity. Magn. Reson. Med. 2002, 48:577-582.
48. Widjaja E., Wei X., Vidarsson L., Moineddin R., Macgowan C., Nilsson D. Alteration of diffusion tensor parameters in postmortem brain. Magn. Reson. Imaging 2009, 27:865-870.
49. Zhang H., Dyrby T.B., Alexander D.C. Axon diameter mapping in crossing fibers with diffusion MRI. Lecture Notes in Computer Science 2011, 82-89.
50. Zhang H., Hubbard P.L., Parker G.J.M., Alexander D.C. Axon diameter mapping in the presence of orientation dispersion with diffusion MRI. Neuroimage 2011, 56:1301-1315.