Abstract
In this paper, we describe methods for constructing shape priors using orientation information to model white matter tracts from magnetic resonance diffusion tensor images (DTI). Shape Normalization is needed for the construction of a shape prior using statistical methods. Moving beyond shape normalization using boundary-only or orientation-only information, our method combines the idea of sweeping and inverse-skeletonization to parameterize 3D volumetric shape, which provides point correspondence and orientations over the whole volume in a continuous fashion. Tangents from this continuous model can be treated as a de-noised reconstruction of the original structural orientation inside a shape. We demonstrate the accuracy of this technique by reconstructing synthetic data and the 3D cingulum tract from brain DTI data and manually drawn 2D contours for each tract. Our output can also serve as the input for subsequent boundary finding or shape analysis.
Chapter PDF
References
Chan, T., Zhu, W.: Level set based shape prior segmentation. In: IEEE Computer Society Conference on Computer Vision and Pattern Recognition (CVPR), vol. 2, pp. 1164–1170 (2005)
Cootes, T.F., Edwards, G.J., Taylor, C.J.: Active appearance models. IEEE Transactions on Pattern Analysis and Machine Intelligence 23(6), 681–685 (2001)
Cootes, T.F., Taylor, C.J., Cooper, D.H., Graham, J.: Active shape models-their training and application. Computer Vision and Image Understanding 61(1), 38–59 (1995)
Huang, X., Metaxas, D.N.: Metamorphs: Deformable shape and appearance models. IEEE Transactions on Pattern Analysis and Machine Intelligence 30(8), 1444–1459 (2008)
Leventon, M.E., Grimson, W.E.L., Faugeras, O.: Statistical shape influence in geodesic active contours. In: IEEE Conference on Computer Vision and Pattern Recognition, Proceedings, vol. 1, pp. 316–323 (2000)
Staib, L.H., Duncan, J.S.: Model-based deformable surface finding for medical images. IEEE Transactions on Medical Imaging 15(5), 720–731 (1996)
Tsai, A., Yezzi, A., Wells, W., Tempany, C., Tucker, D., Fan, A., Grimson, W.E., Willsky, A.: A shape-based approach to the segmentation of medical imagery using level sets. IEEE Transactions on Medical Imaging 22(2), 137–154 (2003)
Wang, Y., Staib, L.: Boundary finding with prior shape and smoothness models. IEEE Transactions on Pattern Analysis and Machine Intelligence 22(7), 738–743 (2000)
Basser, P.J., Jones, D.K.: Diffusion-tensor MRI: theory, experimental design and data analysis - a technical review. NMR Biomed. 15(7-8), 456–467 (2002)
Jellison, B.J., Field, A.S., Medow, J., Lazar, M., Salamat, S.M., Alexander, A.L.: Diffusion tensor imaging of cerebral white matter: A pictorial review of physics, fiber tract anatomy, and tumor imaging patterns. AJNR Am. J. Neuroradiol. 25(3), 356–369 (2004)
Mori, S., van Zijl, P.C.: Fiber tracking: principles and strategies - a technical review. NMR Biomed. 15(7-8), 468–480 (2002)
O’Donnell, L., Westin, C.L.: White matter tract clustering and correspondence in populations. Med. Image Comput. Comput. Assist. Interv. MICCAI (October 2005)
Parker, G.J.M., Wheeler-Kingshott, C.A.M., Barker, G.J.: Estimating distributed anatomical connectivity using fast marching methods and diffusion tensor imaging. IEEE Transactions on Medical Imaging 21(5), 505–512 (2002)
Wakana, S., Jiang, H., Nagae-Poetscher, L.M., van Zijl, P.C., Mori, S.: Fiber tract-based atlas of human white matter anatomy. Radiology 230(1), 77–87 (2004)
Sun, H., Yushkevich, P., Zhang, H., Cook, P., Duda, J., Simon, T., Gee, J.: Shape-based normalization of the corpus callosum for DTI connectivity analysis. IEEE Transactions on Medical Imaging 26(9), 1166–1178 (2007)
Rueckert, D., Sonoda, L.I., Hayes, C., Hill, D.L., Leach, M.O., Hawkes, D.J.: Nonrigid registration using free-form deformations: application to breast mr images. IEEE Trans. Med. Imaging 18(8), 712–721 (1999)
Yushkevich, P., Zhang, H., Gee, J.: Continuous medial representation for anatomical structures. IEEE Trans. on Medical Imaging 25(12), 1547–1564 (2006)
Jackowski, M., Kao, C.Y., Qiu, M., Constable, T.R., Staib, L.H.: White matter tractography by anisotropic wavefront evolution and diffusion tensor imaging. Medical Image Analysis 9(5), 427–440 (2005)
Osher, S., Sethian, J.A.: Fronts propagating with curvature-dependent speed: Algorithms based on hamilton-jacobi formulations. J. of Comp. Physics 79, 12–49 (1988)
von Seggern, D.H.: CRC Standard Curves and Surfaces: A Mathematica Notebook. CRC Press, Boca Raton
Author information
Authors and Affiliations
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2009 Springer-Verlag Berlin Heidelberg
About this paper
Cite this paper
Ho, H.P., Papademetris, X., Wang, F., Blumberg, H.P., Staib, L.H. (2009). Volumetric Shape Model for Oriented Tubular Structure from DTI Data. In: Yang, GZ., Hawkes, D., Rueckert, D., Noble, A., Taylor, C. (eds) Medical Image Computing and Computer-Assisted Intervention – MICCAI 2009. MICCAI 2009. Lecture Notes in Computer Science, vol 5762. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-04271-3_3
Download citation
DOI: https://doi.org/10.1007/978-3-642-04271-3_3
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-642-04270-6
Online ISBN: 978-3-642-04271-3
eBook Packages: Computer ScienceComputer Science (R0)