Global tractography with embedded anatomical priors for quantitative connectivity analysis

Frontiers in Neurology

Volumn 5, Issue , 2014, Pages

  Lemkaddem, Alia ^a   Skiöldebrand, Didrik ^a   Palú, Alessandro Dal ^b   Thiran, Jean Philippe ^a,c   Daducci, Alessandro ^a,c,d  

^a EPFL   (Switzerland)

^b UNIVERSITY OF PARMA   (Italy)

^c UNIVERSITY OF LAUSANNE   (Switzerland)

^d University of Lausanne   (Switzerland)

Author keywords

Anatomical priors; Brain connectivity; Diffusion MRI; Global tractography; MCMC; Spline

Indexed keywords

ALGORITHM; ARTICLE; BRAIN REGION; CONTROLLED STUDY; DIFFUSION WEIGHTED IMAGING; FUNCTIONAL CONNECTIVITY; IMAGE RECONSTRUCTION; NERVE TRACT; QUANTITATIVE ANALYSIS; TRACTOGRAPHY; WHITE MATTER;

EID: 84999764606     PISSN: None     EISSN: 16642295     Source Type: Journal    
DOI: 10.3389/fneur.2014.00232     Document Type: Article

References (29)

1. Le Bihan D, Breton E. Imagerie de diffusion in-vivo par resonance magnetique nucleaire. C R Acad Sci (Paris) (1985) 301:1109-12
2. Mori S, Crain BJ, Chacko VP, van Zijl PC. Three-dimensional tracking of axonal projections in the brain by magnetic resonance imaging. Ann Neurol (1999) 45(2):265-9. doi:10.1002/1531-8249(199902)45:2<265::AID-ANA21>3.0.CO; 2-3
3. Basser PJ, Pajevic S, Pierpaoli C, Duda J, Aldroubi A. In vivo fiber tractography using DT-MRI data. Magn Reson Med (2000) 44(4):625-32. doi:10.1002/1522-2594(200010)44:4<625::AID-MRM17>3.0.CO;2-O
4. Parker G, Haroon H, Wheeler-Kingshott C. A framework for a streamlinebased probabilistic index of connectivity (PICo) using a structural interpretation of MRI diffusion measurements. J Magn Reson Imaging (2003) 18(2):242-54. doi:10.1002/jmri.10350
5. Behrens T, Woolrich M, Jenkinson M, Johansen-Berg H, Nunes R, Clare S, et al. Characterization and propagation of uncertainty in diffusion-weighted MR imaging. Magn Reson Med (2003) 50(5):1077-88. doi:10.1002/mrm.10609
6. Jbabdi S, Bellec P, Toro R, Daunizeau J, Pelegrini-Issac M, Benali H. Accurate anisotropic fast marching for diffusion-based geodesic tractography. Int J Biomed Imaging (2008) 2008:320195. doi:10.1155/2008/320195
7. Parker G, Wheeler-Kingshott C, Barker G. Estimating distributed anatomical connectivity using fast marching methods and diffusion tensor imaging. IEEE Trans Med Imaging (2002) 21(5):505-12. doi:10.1109/TMI.2002.1009386
8. Fillard P, Poupon C, Mangin J. A novel global tractography algorithm based on an adaptive spin glass model. Med Image Comput Comput Assist Interv (2009) 12:927-34. doi:10.1007/978-3-642-04268-3_114
9. Reisert M, Mader I, Anastasopoulos C, Weigel M, Schnell S, Kiselev V. Global fiber reconstruction becomes practical. Neuroimage (2011) 54(2):955-62. doi: 10.1016/j.neuroimage.2010.09.016
10. Kreher B, Mader I, Kiselev V. Gibbs tracking: a novel approach for the reconstruction of neuronal pathways. Magn Reson Med (2008) 60(4):953-63. doi:10.1002/mrm.21749
11. Fillard P, Descoteaux M, Goh A, Gouttard S, Jeurissen B, Malcolm J, et al. Quantitative evaluation of 10 tractography algorithms on a realistic diffusion MR phantom. Neuroimage (2011) 56(1):220-34. doi:10.1016/j.neuroimage. 2011.01.032
12. Smith RE, Tournier J-D, Calamante F, Connelly A. Anatomically-constrained tractography: improved diffusion MRI streamlines tractography through effective use of anatomical information. Neuroimage (2012) 62(3):1924-38. doi:10. 1016/j.neuroimage.2012.06.005
13. Girard G, Whittingstall K, Deriche R, Descoteaux M. Towards quantitative connectivity analysis: reducing tractography biases. Neuroimage (2014) 98:266-78. doi:10.1016/j.neuroimage.2014.04.074
14. Côté M-A, Girard G, Boré A, Garyfallidis E, Houde J-C, Descoteaux M. Tractometer: towards validation of tractography pipelines. Med Image Anal (2013) 17(7):844-57. doi:10.1016/j.media.2013.03.009
15. Poupon C, Rieul B, Kezele I, Perrin M, Poupon F, Mangin J-F. New diffusion phantoms dedicated to the study and validation of high-angular-resolution diffusion imaging (HARDI) models. Magn Reson Med (2008) 60(6):1276-83. doi:10.1002/mrm.21789
16. Hagmann P, Kurant M, Gigandet X, Thiran P, Wedeen VJ, Meuli R, et al. Mapping human whole-brain structural networks with diffusion MRI. PLoS One (2007) 2:e597. doi:10.1371/journal.pone.0000597
17. Jbabdi S, Johansen-Berg H. Tractography: where do we go from here? Brain Connect (2011) 1(3):169-83. doi:10.1089/brain.2011.0033
18. Jones DK, Knösche TR, Turner R. White matter integrity, fiber count, and other fallacies: the do's and don'ts of diffusion MRI. Neuroimage (2013) 73(0):239-54. doi:10.1016/j.neuroimage.2012.06.081
19. Sherbondy AJ, Dougherty RF, Ananthanarayanan R, Modha DS, Wandell BA. Think global, act local; projectome estimation with BlueMatter. Med Image Comput Comput Assist Interv (2009) 12(Pt 1):861-8. doi:10.1007/978-3-642-04268-3_106
20. Sherbondy A, Rowe M, Alexander D.). MicroTrack: an algorithm for concurrent projectome and microstructure estimation. Medical Image Computing and Computer-Assisted Intervention-MICCAI 2010, Volume 6361 of Lecture Notes in Computer Science. Berlin: Springer (2010). p. 183-90
21. Smith RE, Tournier J-D, Calamante F, Connelly A. SIFT: spherical-deconvolution informed filtering of tractograms. Neuroimage (2013) 67(0):298-312. doi:10. 1016/j.neuroimage.2012.11.049
22. Daducci A, Dal Palú A, Lemkaddem A, Thiran J-P. COMMIT: convex optimization modeling for micro-structure informed tractography. IEEE Trans Med Imaging (2014) (99):1. doi:10.1109/TMI.2014.2352414
23. Garyfallidis E, Brett M, Correia MM, Williams GB, Nimmo-Smith I. QuickBundles, a method for tractography simplification. Front Neurosci (2012) 6:175. doi:10.3389/fnins.2012.00175
24. Catmull E, Rom R. A class of local interpolating splines. In: Barnhill RE, Riesenfled RF, editors. Computer aided geometric design. New York, NY: Academic Press (1974). p. 317-26
25. Douglas DH, Peucker TK. Algorithms for the reduction of the number of points required to represent a digitized line or its caricature. Cartographica (1973) 10:112-22. doi:10.3138/FM57-6770-U75U-7727
26. Jbabdi S, Woolrich MW, Andersson JL, Behrens TE. A Bayesian framework for global tractography. Neuroimage (2007) 37(1):116-29. doi:10.1016/j.neuroimage.2007.04.039
27. Tuch DS, Reese TG, Wiegell MR, Makris N, Belliveau JW, Wedeen VJ. High angular resolution diffusion imaging reveals intravoxel white matter fiber heterogeneity. Magn Reson Med (2002) 48:577-82. doi:10.1002/mrm. 10268
28. Kirkpatrick S, Gelatt CD, Vecchi MP. Optimization by simulated annealing. Science (1983) 220:671-80. doi:10.1126/science.220.4598.671
29. Daducci A, Dal Palu A, Lemkaddem A, Thiran J-P. A convex optimization framework for global tractography. 2013 IEEE 10th International Symposium on Biomedical Imaging (ISBI) San Francisco (2013). p. 524-7. doi:10.1109/ISBI.2013. 6556527