Automatic fiber bundle segmentation in massive tractography datasets using a multi-subject bundle atlas

NeuroImage

Volumn 61, Issue 4, 2012, Pages 1083-1099

  Guevara, P ^a,b,c   Duclap, D ^a,b   Poupon, C ^a,b   Marrakchi Kacem, L ^a,b,f   Fillard, P ^a,b,e   Le Bihan, D ^a   Leboyer, M ^d   Houenou, J ^a,b,d   Mangin, J F ^a,b  

^a DIF   (France)

^b Institut Federatif de Recherche 49   (France)

^c UNIVERSITY OF CONCEPCIÓN   (Chile)

^d ASSISTANCE PUBLIQUE HÔPITAUX DE PARIS   (France)

^e INRIA SACLAY   (France)

^f CNRS   (France)

Author keywords

Bundle atlas; Diffusion MRI; Fiber clustering; Tractography segmentation; White matter tracts

Indexed keywords

ANALYTIC METHOD; ARTICLE; BRAIN TISSUE; CELL LABELING; CELL METABOLISM; CELL POPULATION; CELL SHAPE; CELLULAR DISTRIBUTION; CONTROLLED STUDY; CRANIAL NERVE; DATA BASE; HUMAN; HUMAN CELL; HUMAN TISSUE; LEFT HEMISPHERE; NERVE FIBER; NERVE FIBER ATLAS; PRIORITY JOURNAL; PROCESS MODEL; RIGHT HEMISPHERE; STRUCTURE ANALYSIS; TISSUE STRUCTURE; TRACTOGRAPHY; WHITE MATTER;

EID: 84861331095     PISSN: 10538119     EISSN: 10959572     Source Type: Journal    
DOI: 10.1016/j.neuroimage.2012.02.071     Document Type: Article

References (43)

1. Auzias G., Colliot O., Glaunes J., Perrot M., Mangin J.-F., Trouve A., Baillet S. Diffeomorphic brain registration under exhaustive sulcal constraints. IEEE Trans. Med. Imaging 2011, 30(6):1214-1227. Jun.
2. Basser P.J., Pierpaoli C. Inferring microstructural features and the physiological state of tissues from diffusion-weighted images. NMR Biomed. 1995, 8(7-8):333-344.
3. Büchel C., Raedler T., Sommer M., Sach M., Weiller C., Koch M.A. White matter asymmetry in the human brain: a diffusion tensor MRI study. Cereb Cortex 2004, 14(9):945-951. Sep.
4. Cachia A., Mangin J.-F., Rivière D., Papadopoulos-Orfanos D., Kherif F., Bloch I.J.R. A generic framework for parcellation of the cortical surface into gyri using geodesic Voronoï diagrams. Med. Image Anal. 2003, 7(4):403-416.
5. Catani M., Allin M.P.G., Husain M., Pugliese L., Mesulam M.M., Murray R.M., Jones D.K. Symmetries in human brain language pathways correlate with verbal recall. Proc. Natl. Acad. Sci. U.S.A. 2007, 104(43):17163-17168. Oct.
6. Catani M., Howard R.J., Pajevic S., Jones D.K. Virtual in vivo interactive dissection of white matter fasciculi in the human brain. NeuroImage 2002, 17(1):77-94. Sep.
7. Catani M., Jones D.K., ffytche D.H. Perisylvian language networks of the human brain. Ann. Neurol. 2005, 57(1):8-16. Jan.
8. Catani M., Thiebaut de Schotten M. A diffusion tensor imaging tractography atlas for virtual in vivo dissections. Cortex 2008, 44(8):1105-1132. Sep.
9. Ceritoglu C., Oishi K., Li X., Chou M.-C., Younes L., Albert M., Lyketsos C., van Zijl P.C., Miller M.I., Mori S. Multi-contrast large deformation diffeomorphic metric mapping for diffusion tensor imaging. NeuroImage 2009, 47(2):618-627.
10. Corouge I., Gouttard S., Gerig G. Towards a shape model of white matter fiber bundles using diffusion tensor MRI. ISBI 2004 2004, vol. 1:344-347.
11. Descoteaux M., Angelino E., Fitzgibbons S., Deriche R. Regularized, fast and robust analytical q-ball imaging. Magn. Reson. Med. 2007, 58:497-510.
12. Descoteaux M., Deriche R., Knösche T.R., Anwander A. Deterministic and probabilistic tractography based on complex fibre orientation distributions. IEEE Trans. Med. Imaging 2009, 28(2):269-286. Febuary.
13. Descoteaux M., Wiest-Daesslé N., Prima S., Barillot C., Deriche R. Impact of rician adapted non-local means filtering on HARDI. MICCAI 2008. Vol. LNCS 5762 2008, 122-130. Springer-Verlag.
14. Guevara P., Duclap D., Marrakchi-Kacem L., Rivière D., Cointepas Y., Poupon C., Mangin J.-F. Accurate tractography propagation mask using T1-weighted data rather than FA. ISMRM 2011.
15. Guevara P., Poupon C., Riviére D., Cointepas Y., Descoteaux M., Thirion B., Mangin J.-F. Robust clustering of massive tractography datasets. NeuroImage 2011, 54(3):1975-1993. Feb.
16. Guevara P., Poupon C., Rivière D., Cointepas Y., Marrakchi L., Descoteaux M., Fillard P., Thirion B., Mangin J.-F. Inference of a hardi fiber bundle atlas using a two-level clustering strategy. MICCAI 2010. Vol. LNCS 6361 2010, 550-557. Springer-Verlag.
17. Lawes I.N.C., Barrick T.R., Murugam V., Spierings N., Evans D.R., Song M., Clark C.A. Atlas-based segmentation of white matter tracts of the human brain using diffusion tensor tractography and comparison with classical dissection. NeuroImage 2008, 39(1):62-79. Jan.
18. Le Bihan D., Mangin J.F., Poupon C., Clark C.A., Pappata S., Molko N., Chabriat H. Diffusion tensor imaging: concepts and applications. J. Magn. Reson. Imaging 2001, 13(4):534-546. Apr.
19. Li H., Xue Z., Guo L., Liu T., Hunter J., Wong S. A hybrid approach to automatic clustering of white matter fibers. NeuroImage 2010, 49(2):1249-1258. Jan.
20. Lyu I., Seong J.-K., Shin S.Y., et al. Spectral-based automatic labeling and refining of human cortical sulcal curves using expert-provided examples. NeuroImage 2010, 52(1):142-157. Aug.
21. Maddah M., Mewes A.U., Haker S., Grimson W., Warfield S. Automated atlas-based clustering of white matter fiber tracts from DTMRI. MICCAI 2005, LNCS 3749 2005, 188-195. Springer-Verlag.
22. Marrakchi-Kacem L., Poupon C., Jouvent E., Rekik I., Mangin J.-F., Poupon F. Robust automatic segmentation of ventricles: application to a genetic small vessel disease, cadasil. HBM 2010. Barcelona, Spain 2010.
23. Marrakchi-Kacem L., Poupon C., Mangin J.-F., Poupon F. Multi-contrast deep nuclei segmentation using a probabilistic atlas. ISBI 2010 2010, 61-64.
24. Mori S., van Zijl P.C.M. Fiber tracking: principles and strategies-a technical review. NMR Biomed. 2002, 15(7-8):468-480.
25. Mori S., Wakana S., van Zijl P.C.M., Nagae-Poetscher L.M. MRI Atlas of Human White Matter 2005, Elsevier Science, First Edition, August.
26. O'Donnell L., Westin C.-F. Automatic tractography segmentation using a high-dimensional white matter atlas. IEEE Trans. Med. Imaging 2007, 26(11):1562-1575. Nov.
27. O'Donnell L.J., Kubicki M., Shenton M.E., Dreusicke M.H., Grimson W.E.L., Westin C.F. A method for clustering white matter fiber tracts. AJNR Am J Neuroradiol 2006, 27(5):1032-1036. May.
28. O'Donnell L.J., Westin C.-F., Golby A.J. Tract-based morphometry for white matter group analysis. NeuroImage 2009, 45(3):832-844. Apr.
29. Oishi K., Faria A., Jiang H., Li X., Akhter K., Zhang J., Hsu J.T., Miller M.I., van Zijl P.C.M., Albert M., Lyketsos C.G., Woods R., Toga A.W., Pike G.B., Rosa-Neto P., Evans A., Mazziotta J., Mori S. Atlas-based whole brain white matter analysis using large deformation diffeomorphic metric mapping: application to normal elderly and Alzheimer's disease participants. NeuroImage 2009, 46(2):486-499. Jun.
30. Oishi K., Zilles K., Amunts K., Faria A., Jiang H., Li X., Akhter K., Hua K., Woods R., Toga A.W., Pike G.B., Rosa-Neto P., Evans A., Zhang J., Huang H., Miller M.I., van Zijl P.C.M., Mazziotta J., Mori S. Human brain white matter atlas: identification and assignment of common anatomical structures in superficial white matter. NeuroImage 2008, 43(3):447-457. Nov.
31. Perrin M., Poupon C., Cointepas Y., Rieul B., Golestani N., Pallier C., Rivière D., Constantinesco A., Le Bihan D., Mangin J.-F. Fiber tracking in q-ball fields using regularized particle trajectories. Inf Process Med Imaging 2005, 19:52-63.
32. Poupon C., Poupon F., Allirol L. NMR: a free database dedicated to the anatomofunctional study of the human brain connectivity. HBM. Florence, Italy 2006.
33. Reese T.G., Heid O., Weisskoff R.M., Wedeen V.J. Reduction of eddy-current-induced distortion in diffusion MRI using a twice-refocused spin echo. Magn. Reson. Med. 2003, 49(1):177-182. Jan.
34. Smith S.M., Jenkinson M., Johansen-Berg H., Rueckert D., Nichols T.E., Mackay C.E., Watkins K.E., Ciccarelli O., Cader M.Z., Matthews P.M., Behrens T.E.J. Tract-based spatial statistics: voxelwise analysis of multi-subject diffusion data. NeuroImage 2006, 31(4):1487-1505. Jul.
35. Tournier J.-D., Calamante F., Connelly A. Robust determination of the fibre orientation distribution in diffusion MRI: non-negativity constrained super-resolved spherical deconvolution. NeuroImage 2007, 35(4):1459-1472. May.
36. Vercauteren T., Pennec X., Perchant A., Ayache N. Diffeomorphic demons: efficient non-parametric image registration. NeuroImage 2009, 45(1 Suppl):S61-S72. Mar.
37. Visser E., Nijhuis E.H.J., Buitelaar J.K., Zwiers M.P. Partition-based mass clustering of tractography streamlines. NeuroImage 2011, 54(1):303-312. Jan.
38. Wakana S., Caprihan A., Panzenboeck M.M., Fallon J.H., Perry M., Gollub R.L., 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):630-644. Jul.
39. Wang X., Grimson W.E.L., Westin C.-F. Tractography segmentation using a hierarchical dirichlet processes mixture model. NeuroImage 2011, 54(1):290-302. Jan.
40. Wassermann D., Bloy L., Kanterakis E., Verma R., Deriche R. Unsupervised white matter fiber clustering and tract probability map generation: applications of a Gaussian process framework for white matter fibers. NeuroImage 2010, 51(1):228-241. May.
41. Yushkevich P.A., Zhang H., Simon T.J., Gee J.C. Structure-specific statistical mapping of white matter tracts. NeuroImage 2008, 41(2):448-461. Jun.
42. Zhang S., Correia S., Laidlaw D.H. Identifying white-matter fiber bundles in DTI data using an automated proximity-based fiber-clustering method. IEEE Trans. Vis. Comput. Graph. 2008, 14(5):1044-1053. Sept.-Oct.
43. Zhang Y., Zhang J., Oishi K., Faria A.V., Jiang H., Li X., Akhter K., Rosa-Neto P., Pike G.B., Evans A., Toga A.W., Woods R., Mazziotta J.C., Miller M.I., van Zijl P.C., Mori S. Atlas-guided tract reconstruction for automated and comprehensive examination of the white matter anatomy. NeuroImage 2010, 52(4):1289-1301.