Tractography: Where Do We Go from Here?

Brain Connectivity

Volumn 1, Issue 3, 2011, Pages 169-183

  Jbabdi, Saad ^a   Johansen Berg, Heidi ^a  

^a UNIVERSITY OF OXFORD   (United Kingdom)

Author keywords

anatomical connectivity; brain connectivity; diffusion tensor imaging (DTI); high angular resolution diffusion imaging (HARDI); tractography

Indexed keywords

EID: 84902362907     PISSN: 21580014     EISSN: 21580022     Source Type: Journal    
DOI: 10.1089/brain.2011.0033     Document Type: Review

References (131)

1. Aboitiz F, et al. 1992. Fiber composition of the human corpus callosum. Brain Res 598:143-153.
2. Aganj I, et al. 2010. Reconstruction of the orientation distribution function in single- and multiple-shell q-ball imaging within constant solid angle. Magn Reson Med 64:554-566.
3. Aganj I, et al. 2011. A Hough transform global probabilistic approach to multiple-subject diffusion MRI tractography. Med Image Anal 15:414-425.
4. Alexander DC. 2008. A general framework for experiment design in diffusion MRI and its application in measuring direct tissue-microstructure features. Magn Reson Med 60:439-448.
5. Alexander D.C., Barker GJ. 2005. Optimal imaging parameters for fiber-orientation estimation in diffusion MRI. Neuroimage 27:357-367.
6. Andrews T.J., Halpern S.D., Purves D. 1997. Correlated size variations in human visual cortex, lateral geniculate nucleus, and optic tract. J Neurosci 17:2859-2868.
7. Anwander A, et al. 2007. Connectivity-based parcellation of Broca's area. Cereb Cortex 17:816-825.
8. Anwander A, et al. DTI-Tractography Based Parcellation of Human Precentral Gyrus. In 11th Annual Meeting of the Organization For Human Brain Mapping, Toronto, Canada. 2005.
9. Assaf Y, et al. 2004. New modeling and experimental framework to characterize hindered and restricted water diffusion in brain white matter. Magn Reson Med 52:965-978.
10. Assaf Y, et al. 2008. AxCaliber: a method for measuring axon diameter distribution from diffusion MRI. Magn Reson Med 59:1347-1354.
11. Avram A.V., Guidon A, Song AW. 2010. Myelin water weighted diffusion tensor imaging. Neuroimage 53:132-138.
12. Bach D.R., et al. 2011. Deep and superficial amygdala nuclei projections revealed in vivo by probabilistic tractography. J Neurosci 31:618-623.
13. Barazany D, Basser P.J., Assaf Y. 2009. In vivo measurement of axon diameter distribution in the corpus callosum of rat brain. Brain 132(Pt 5):1210-1220.
14. Basser P, et al. 2000. In vivo fiber tractography using DT-MRI data. MRM 44:625-632.
15. Basser P, Mattiello J, Bihan DL. 1994. Estimation of the effective self-diffusion tensor from the NMR spin echo. J Magn Reson 103:247-254.
16. Beckmann M, Johansen-Berg H, Rushworth MF. 2009. Connectivity-based parcellation of human cingulate cortex and its relation to functional specialization. J Neurosci 29:1175-1190.
17. Behrens T.E., et al. 2003a. Characterization and propagation of uncertainty in diffusion-weighted MR imaging. Magn Reson Med 50:1077-1088.
18. Behrens T.E., et al. 2003b. Non-invasive mapping of connections between human thalamus and cortex using diffusion imaging. Nat Neurosci 6:750-757.
19. Behrens T.E., et al. 2006. A consistent relationship between local white matter architecture and functional specialisation in medial frontal cortex. Neuroimage 30:220-227.
20. Behrens T.E., et al. 2007. Probabilistic diffusion tractography with multiple fibre orientations: what can we gain? Neuroimage 34:144-155.
21. Behrens TEJ, Jbabdi S. 2009. MR Diffusion Tractography, in Diffusion MRI. San Diego: Academic Press. pp. 333-351.
22. Berman J.I., et al. 2005. Quantitative diffusion tensor MRI fiber tractography of sensorimotor white matter development in premature infants. Neuroimage 27:862-871.
23. Berman J.I., et al. 2008. Probabilistic streamline q-ball tractography using the residual bootstrap. Neuroimage 39:215-222.
24. Biswal B.B., et al. 2010. Toward discovery science of human brain function. Proc Natl Acad Sci USA 107:4734-4739.
25. Calamante F, et al. 2010. Track-density imaging (TDI): super-resolution white matter imaging using whole-brain track-density mapping. Neuroimage 53:1233-1243.
26. Calamante F, et al. 2011. Track density imaging (TDI): validation of super resolution property. Neuroimage 56:1259-1266.
27. Callaghan PT. 1991. Principles of Nuclear Magnetic Resonance Microscopy. Oxford: Oxford University Press. p. 371.
28. Catani M. 2007. From hodology to function. Brain 130(Pt 3):602-605.
29. Catani M, et al. 2002. Virtual in vivo interactive dissection of white matter fasciculi in the human brain. Neuroimage 17:77-94.
30. Catani M, Jones D, Ffytche D. 2005. Perisylvian language networks of the human brain. Ann Neurol 57:8-16.
31. Catani M, Thiebaut de Schotten M. 2008. A diffusion tensor imaging tractography atlas for virtual in vivo dissections. Cortex 44:1105-1132.
32. Ciccarelli O, et al. 2008. Diffusion-based tractography in neurological disorders: concepts, applications, and future developments. Lancet Neurol 7:715-727.
33. Clayden J.D., Storkey A.J., Bastin ME. 2007. A probabilistic model-based approach to consistent white matter tract segmentation. IEEE Trans Med Imaging 26:1555-1561.
34. Conturo T.E., et al. 1999. Tracking neuronal fiber pathways in the living human brain. Proc Natl Acad Sci USA 96:10422-10427.
35. Dauguet J, et al. 2007. Comparison of fiber tracts derived from in vivo DTI tractography with 3D histological neural tract tracer reconstruction on a macaque brain. Neuroimage 37:530-538.
36. Davis S.W., et al. 2009. Assessing the effects of age on long white matter tracts using diffusion tensor tractography. Neuroimage 46:530-541.
37. Deoni S.C., et al. 2008. Gleaning multicomponent T1 and T2 information from steady-state imaging data. Magn Reson Med 60:1372-1387.
38. Descoteaux M, et al. 2007. Regularized, fast, and robust analytical Q-ball imaging. Magn Reson Med 58:497-510.
39. Descoteaux M, et al. 2009. Deterministic and probabilistic tractography based on complex fibre orientation distributions. IEEE Trans Med Imaging 28:269-286.
40. Devlin J.T., et al. 2006. Reliable identification of the auditory thalamus using multi-modal structural analyses. Neuroimage 30:1112-1120.
41. Dyrby T.B., et al. 2007. Validation of in vitro probabilistic tractography. Neuroimage 37:1267-1277.
42. Eluvathingal T.J., et al. 2007. Quantitative diffusion tensor tractography of association and projection fibers in normally developing children and adolescents. Cereb Cortex 17:2760-2768.
43. Feinberg D.A., et al. 2010. Multiplexed echo planar imaging for sub-second whole brain FMRI and fast diffusion imaging. PLoS ONE 5:e15710.
44. Felleman D.J., Van Essen DC. 1991. Distributed hierarchical processing in the primate cerebral cortex. Cereb Cortex 1:1-47.
45. Fillard P, et al. 2011. Quantitative evaluation of 10 tractography algorithms on a realistic diffusion MR phantom. Neuroimage 56:220-234.
46. Frey S, et al. 2008. Dissociating the human language pathways with high angular resolution diffusion fiber tractography. J Neurosci 28:11435-11444.
47. Friston K. 2011. Functional and effective connectivity: a review. Brain Connect 1:13-36.
48. Gong G, et al. 2005a. Asymmetry analysis of cingulum based on scale-invariant parameterization by diffusion tensor imaging. Hum Brain Mapp 24:92-98.
49. Gong G, et al. 2005b. Side and handedness effects on the cingulum from diffusion tensor imaging. Neuroreport 16:1701-1705.
50. Goodlett C.B., et al. 2009. Group analysis of DTI fiber tract statistics with application to neurodevelopment. Neuroimage 45(1 Suppl):S133-S142.
51. Greicius M.D., et al. 2009. Resting-state functional connectivity reflects structural connectivity in the default mode network. Cereb Cortex 19:72-78.
52. Hagmann P, et al. 2007. Mapping human whole-brain structural networks with diffusion MRI. PLoS ONE 2:e597.
53. Hagmann P, Gigandet X, Meuli R, Kãtter R, Sporns O, Wedeen VJ. 2008. Quantitative validation of MR tractography using the CoCoMac database. Magn Reson Med 16:427.
54. Hasan K.M., et al. 2010. Quantification of the spatiotemporal microstructural organization of the human brain association, projection and commissural pathways across the lifespan using diffusion tensor tractography. Brain Struct Funct 214:361-373.
55. Heidemann R.M., et al. 2010. Diffusion imaging in humans at 7T using readout-segmented EPI and GRAPPA. Magn Reson Med 64:9-14.
56. Hess C.P., et al. 2006. Q-ball reconstruction of multimodal fiber orientations using the spherical harmonic basis. Magn Reson Med 56:104-117.
57. Hilgetag C.C., O'Neill M.A., Young MP. 2000. Hierarchical organization of macaque and cat cortical sensory systems explored with a novel network processor. Philos Trans R Soc Lond B Biol Sci 355:71-89.
58. Honey C.J., et al. 2009. Predicting human resting-state functional connectivity from structural connectivity. Proc Natl Acad Sci USA 106:2035-2040.
59. Honey C.J., Thivierge J.P., Sporns O. 2010. Can structure predict function in the human brain? Neuroimage 52:766-776.
60. Hsu J.L., et al. 2010. Microstructural white matter changes in normal aging: a diffusion tensor imaging study with higher-order polynomial regression models. Neuroimage 49:32-43.
61. Huang H. 2010. Structure of the fetal brain: what we are learning from diffusion tensor imaging. Neuroscientist 16:634-649.
62. Hubbard P.L., et al. 2009. Validation of Tractography, in Diffusion MRI. San Diego: Academic Press. pp. 353-375.
63. Jbabdi S. 2009. Imaging Structure and Function, in Diffusion MRI. San Diego: Academic Press. pp. 461-480.
64. Jbabdi S, Behrens T.E., Smith SM. 2010. Crossing fibres in tract-based spatial statistics. Neuroimage 49:249-256.
65. Jbabdi S, et al. 2007. A Bayesian framework for global tractography. Neuroimage 37:116-129.
66. Jbabdi S, et al. 2008. Accurate anisotropic fast marching for diffusion-based geodesic tractography. Int J Biomed Imaging 2008:320195.
67. Jeurissen B, et al. 2011. Probabilistic fiber tracking using the residual bootstrap with constrained spherical deconvolution. Hum Brain Mapp 32:461-479.
68. Johansen-Berg H. 2010. Behavioural relevance of variation in white matter microstructure. Curr Opin Neurol 23:351-358.
69. Johansen-Berg H, Behrens TE. 2006. Just pretty pictures? What diffusion tractography can add in clinical neuroscience. Curr Opin Neurol 19:379-385.
70. Johansen-Berg H, et al. 2004. Changes in connectivity profiles define functionally distinct regions in human medial frontal cortex. Proc Natl Acad Sci USA 101:13335-13340.
71. Johansen-Berg H, et al. 2005. Functional-anatomical validation and individual variation of diffusion tractography-based segmentation of the human thalamus. Cereb Cortex 15:31-39.
72. Johansen-Berg H, et al. 2008. Anatomical connectivity of the subgenual cingulate region targeted with deep brain stimulation for treatment-resistant depression. Cereb Cortex 18:1374-1383.
73. Jones D. 2010. Challenges and limitations of quantifying brain connectivity in vivo with diffusion MRI. Imaging Med 2:341-355.
74. Jones D, et al. 1999a. Non-invasive assessment of axonal fiber connectivity in the human brain via diffusion tensor {MRI}. MRM 42:37-41.
75. Jones D.K., et al. 2006. Age effects on diffusion tensor magnetic resonance imaging tractography measures of frontal cortex connections in schizophrenia. Hum Brain Mapp 27:230-238.
76. Jones D.K., Horsfield M.A., Simmons A. 1999b. Optimal strategies for measuring diffusion in anisotropic systems by magnetic resonance imaging. Magn Reson Med 42:515-525.
77. Jones D.K., Pierpaoli C. 2005. Confidence mapping in diffusion tensor magnetic resonance imaging tractography using a bootstrap approach. Magn Reson Med 53:1143-1149.
78. Kaden E, Anwander A, Knosche TR. 2008. Variational inference of the fiber orientation density using diffusion MR imaging. Neuroimage 42:1366-1380.
79. Kaden E, Knosche T.R., Anwander A. 2007. Parametric spherical deconvolution: inferring anatomical connectivity using diffusion MR imaging. Neuroimage 37:474-488.
80. Klein J.C., et al. 2007. Connectivity-based parcellation of human cortex using diffusion MRI: establishing reproducibility, validity and observer independence in BA 44/45 and SMA/pre-SMA. Neuroimage 34:204-211.
81. Kreher B.W., Mader I, Kiselev VG. 2008. Gibbs tracking: a novel approach for the reconstruction of neuronal pathways. Magn Reson Med 60:953-963.
82. Lawes I.N., et al. 2008. Atlas-based segmentation of white matter tracts of the human brain using diffusion tensor tractography and comparison with classical dissection. Neuroimage 39:62-79.
83. Lazar M, Alexander AL. 2003. An error analysis of white matter tractography methods: synthetic diffusion tensor field simulations. Neuroimage 20:1140-1153.
84. Lebel C, Caverhill-Godkewitsch S, Beaulieu C. 2010. Age-related regional variations of the corpus callosum identified by diffusion tensor tractography. Neuroimage 52:20-31.
85. Leergaard T.B., et al. 2003. In vivo tracing of major rat brain pathways using manganese-enhanced magnetic resonance imaging and three-dimensional digital atlasing. Neuroimage 20:1591-1600.
86. Lehericy S, et al. 2004a. 3-D diffusion tensor axonal tracking shows distinct SMA and pre-SMA projections to the human striatum. Cereb Cortex 14:1302-1309.
87. Lehericy S, et al. 2004b. Diffusion tensor fiber tracking shows distinct corticostriatal circuits in humans. Ann Neurol 55:522-529.
88. MacKay A, et al. 2006. Insights into brain microstructure from the T2 distribution. Magn Reson Imaging 24:515-525.
89. Michielse S, et al. 2010. Selective effects of aging on brain white matter microstructure: a diffusion tensor imaging tractography study. Neuroimage 52:1190-1201.
90. Morris D.M., Embleton K.V., Parker GJ. 2008. Probabilistic fibre tracking: differentiation of connections from chance events. Neuroimage 42:1329-1339.
91. O'Donnell L.J., Westin CF. 2007. Automatic tractography segmentation using a high-dimensional white matter atlas. IEEE Trans Med Imaging 26:1562-1575.
92. O'Donnell L.J., Westin C.F., Golby AJ. 2009. Tract-based morphometry for white matter group analysis. Neuroimage 45:832-844.
93. Pajevic S, Pierpaoli C. 2000. Color schemes to represent the orientation of anisotropic tissues from diffusion tensor data: application to white matter fiber tract mapping in the human brain. Magn Reson Med 43:921.
94. Parker G, Alexander D. 2005. Probabilistic anatomical connectivity derived from the microscopic persistent angular structure of cerebral tissue. Philos Trans R Soc B 360:893-902.
95. Parker G.J., Alexander DC. 2003. Probabilistic Monte Carlo based mapping of cerebral connections utilising whole-brain crossing fibre information. Inf Process Med Imaging 18:684-695.
96. Parker GJM, Wheeler-Kingshott CAM, Barker GJ. 2002. Estimating distributed anatomical connectivity using fast marching methods and diffusion tensor imaging. IEEE Trans Med Imaging 21:505-512.
97. Passingham R.E., Stephan K.E., Kotter R. 2002. The anatomical basis of functional localization in the cortex. Nat Rev Neurosci 3:606-616.
98. Perrin M, et al. 2005. Validation of q-ball imaging with a diffusion fibre-crossing phantom on a clinical scanner. Philos Trans R Soc Lond B Biol Sci 360(1457):881-891.
99. Poupon C, et al. 2008. New diffusion phantoms dedicated to the study and validation of high-angular-resolution diffusion imaging (HARDI) models. Magn Reson Med 60:1276-1283.
100. Reisert M, et al. 2011. Global fiber reconstruction becomes practical. Neuroimage 54:955-962.
101. Rushworth M.F., Behrens T.E., Johansen-Berg H. 2006. Connection patterns distinguish 3 regions of human parietal cortex. Cereb Cortex 16:1418-1430.
102. Sala S, et al. 2010. Microstructural changes and atrophy in brain white matter tracts with aging. Neurobiol Aging [Epub ahead of print]; DOI: 10.1016/j.neurobiolaging.2010.04.027
103. Savadjiev P, et al. 2008. Labeling of ambiguous subvoxel fibre bundle configurations in high angular resolution diffusion MRI. Neuroimage 41:58-68.
104. Schmahmann J.D., et al. 2007. Association fibre pathways of the brain: parallel observations from diffusion spectrum imaging and autoradiography. Brain 130(Pt 3):630-653.
105. Seunarine K.K., et al. 2009. Multiple Fibers: Beyond the Diffusion Tensor, in Diffusion MRI. San Diego: Academic Press. pp. 55-72.
106. Sherbondy A.J., Rowe M.C., Alexander DC. 2011. MicroTrack: an algorithm for concurrent projectome and microstructure estimation. Med Image Comput Comput Assist Interv 13(Pt 1):183-190.
107. Sillery E, et al. 2005. Connectivity of the human periventricular-periaqueductal gray region. J Neurosurg 103:1030-1034.
108. Smith S.M., et al. 2006. Tract-based spatial statistics: voxelwise analysis of multi-subject diffusion data. Neuroimage 31:1487-1505.
109. Smith S.M., et al. 2007. Acquisition and voxelwise analysis of multi-subject diffusion data with tract-based spatial statistics. Nat Protoc 2:499-503.
110. Smith S.M., et al. 2011. Network modelling methods for FMRI. Neuroimage 54:875-891.
111. Sotiropoulos S.N., et al. 2010a. Brain tractography using Q-ball imaging and graph theory: improved connectivities through fibre crossings via a model-based approach. Neuroimage 49:2444-2456.
112. Sotiropoulos S.N., et al. Exact and Analytic Bayesian Inference for Orientation Distribution Functions. In Biomedical Imaging: From Nano to Macro, 2010b. IEEE International Symposium, Rotterdam, The Netherlands, 2010.
113. Sporns O. 2011. The human connectome: a complex network. Ann NY Acad Sci 1224:109-125.
114. Sporns O, Tononi G, Kotter R. 2005. The human connectome: a structural description of the human brain. PLoS Comput Biol 1:e42.
115. Stephan K.E., et al. 2009. Tractography-based priors for dynamic causal models. Neuroimage 47:1628-1638.
116. Stufflebeam S.M., et al. 2008. A non-invasive method to relate the timing of neural activity to white matter microstructural integrity. Neuroimage 42:710-716.
117. Tomassini V, et al. 2007. Diffusion-weighted imaging tractography-based parcellation of the human lateral premotor cortex identifies dorsal and ventral subregions with anatomical and functional specializations. J Neurosci 27:10259-10269.
118. Tournier J.D., et al. 2004. Direct estimation of the fiber orientation density function from diffusion-weighted MRI data using spherical deconvolution. Neuroimage 23:1176-1185.
119. Tournier J.D., Calamante F, Connelly A. 2007. Robust determination of the fibre orientation distribution in diffusion MRI: non-negativity constrained super-resolved spherical deconvolution. Neuroimage 35:1459-1472.
120. Tournier J.D., Mori S, Leemans A. 2011. Diffusion tensor imaging and beyond. Magn Reson Med 65:1532-1556.
121. Tuch D.S., et al. 2002. High angular resolution diffusion imaging reveals intravoxel white matter fiber heterogeneity. Magn Reson Med 48:577-582.
122. Tuch D.S., et al. 2003. Diffusion MRI of complex neural architecture. Neuron 40:885-895.
123. Wakana S, et al. 2004. Fiber tract-based atlas of human white matter anatomy. Radiology 230:77-87.
124. Wedeen V.J., et al. 2005. Mapping complex tissue architecture with diffusion spectrum magnetic resonance imaging. Magn Reson Med 54:1377-1386.
125. Wedeen V.J., et al. 2008. Diffusion spectrum magnetic resonance imaging (DSI) tractography of crossing fibers. Neuroimage 41:1267-1277.
126. Yamada K, et al. 2009. MR tractography: a review of its clinical applications. Magn Reson Med Sci 8:165-174.
127. Yamada M, et al. 2008. Diffusion-tensor neuronal fiber tractography and manganese-enhanced MR imaging of primate visual pathway in the common marmoset: preliminary results. Radiology 249:855-864.
128. Yap P, et al. 2011. PopTract: population-based tractography. IEEE Trans Med Imaging [Epub ahead of print]; DOI: 10.1109/TMI.2011.2154385
129. Yeh F.C., Wedeen V.J., Tseng WY. 2011. Estimation of fiber orientation and spin density distribution by diffusion deconvolution. Neuroimage 55:1054-1062.
130. Yushkevich P.A., et al. 2008. Structure-specific statistical mapping of white matter tracts. Neuroimage 41:448-461.
131. Zhang H, et al. 2011. Axon diameter mapping in the presence of orientation dispersion with diffusion MRI. Neuroimage 56:1301-1315.