Adaptive reproducing kernel particle method for extraction of the cortical surface

IEEE Transactions on Medical Imaging

Volumn 25, Issue 6, 2006, Pages 755-767

  Xu, Meihe ^a,b   Thompson, Paul M ^b   Toga, Arthur W ^a,b  

^a IEEE   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

Adaptive refinement; Cortex extraction; MRI; Reproducing kernel particle

Indexed keywords

ADAPTIVE REFINEMENT; CORTEX EXTRACTION; REPRODUCING KERNEL PARTICLES (RKPM); SEGMENTED LANDMARK DATA;

BRAIN; COMPUTATIONAL METHODS; FINITE DIFFERENCE METHOD; GALERKIN METHODS; IMAGE ENHANCEMENT; IMAGE SEGMENTATION; MAGNETIC RESONANCE IMAGING; MATHEMATICAL MODELS;

MEDICAL IMAGING;

ALGORITHM; ARTICLE; ARTIFICIAL INTELLIGENCE; AUTOMATED PATTERN RECOGNITION; BRAIN CORTEX; COMPUTER ASSISTED DIAGNOSIS; EVALUATION; HISTOLOGY; HUMAN; IMAGE ENHANCEMENT; INFORMATION RETRIEVAL; METHODOLOGY; NUCLEAR MAGNETIC RESONANCE IMAGING; REPRODUCIBILITY; SENSITIVITY AND SPECIFICITY; THREE DIMENSIONAL IMAGING;

ALGORITHMS; ARTIFICIAL INTELLIGENCE; CEREBRAL CORTEX; HUMANS; IMAGE ENHANCEMENT; IMAGE INTERPRETATION, COMPUTER-ASSISTED; IMAGING, THREE-DIMENSIONAL; INFORMATION STORAGE AND RETRIEVAL; MAGNETIC RESONANCE IMAGING; PATTERN RECOGNITION, AUTOMATED; REPRODUCIBILITY OF RESULTS; SENSITIVITY AND SPECIFICITY;

EID: 33746620957     PISSN: 02780062     EISSN: None     Source Type: Journal    
DOI: 10.1109/TMI.2006.873614     Document Type: Article

References (47)

1. M. Kass, A. Witkin, and D. Terzopoulos, "Snakes: active contour models," Int. J. Comp. Vis., vol. 1, no. 4, pp. 321-331, 1987.
2. U. Grenander, Y. Chow, and D. M. Keenan, Hands: A Pattern Theoretic Study of Biological Shapes. New York: Springer-Verlag, 1991.
3. M. I. Miller, G. E. Christensen, Y. Amit, and U. Grenander, "Mathematical textbook of deformable neuroanatomies," Proc. Nat. Acad. Sci., vol. 90, pp. 11944-11948, 1993.
4. C. Davatzikos and J. L. Prince, "Adaptive active contour algorithms for extracting and mapping thick curves," in IEEE Conf. Computer Vision and Pattern Recognition, CVPR'93, New York, June 1993, pp. 524-529.
5. D. Adalsteinsson and J. A. Sethian, "A fast level set method for propagating interface," J. Comput. Phys., vol. 118, no. 2, pp. 269-277, 1995.
6. X. Zeng, L. H. Staib, R. T. Schultz, and J. S. Duncan, "Segmentation and measurement of the cortex from 3-D MR images using coupled-surface propagation," IEEE Trans. Med. Imag., vol. 18, no. 10, pp. 927-937, Oct. 1999.
7. A. M. Dale and M. I. Sereno, "Improve localization of cortical activity by combining EEG and MEG with MRI cortical surface reconstruction: a linear approach," J. Cogn. Neurosci., vol. 5, no. 2,pp. 162-176, 1993.
8. S. Sandor and R. Leahy, "Surface-based labeling of cortical anatomy using a deformable atlas," IEEE Trans. Med. Imag., vol. 16, no. 1, pp. 41-54, Feb. 1997.
9. A. M. Dale, B. Fischl, and M. I. Sereno, "Cortical surface-based analysis I: segmentation and surface reconstruction," NeuroImage, vol. 9, pp. 179-194, 1999.
10. T. Kapur, W. E. L. Grimson, W. M. Wells, and R. Kikinis, "Segmentation of brain tissue from magnetic resonance images," Med. Image Anal., vol. 1, no. 2, pp. 109-127, 1996.
11. D. L. Pham and J. L. Prince, "An adaptive fuzzy segmentation algorithm for three dimensional magnetic resonance images," in Proc. 16th Int. Conf. Information Processing in Medical Imaging (IPMI'99), A. Kuba, Ed. et al., Visegrad, Hungary, Jun. 1999, pp. 140-153.
12. M. Joshi, J. Cui, K. Doolittle, S. Joshi, D. Essen, L. Wang, and M. I. Miller, "Brian segmentation and the generation of cortical surfaces," NeuroImage. vol. 9, pp. 461-476, 1999.
13. C. Xu, D. L. Pham, M. E. Rettmann, D. N. Yu, and J. L. Prince, "Reconstruction of the human cerebral cortex from magnetic resonance images," IEEE Trans. Med. Imag, vol. 18, no. 6, pp. 467-480, Jun. 1999.
14. C. Davatzikos and N. Bryan, "Using a deformable surface model to obtain a shape representation of the cortex," IEEE Trans. Med. Imag., vol. 15, no. 6, pp. 785-795, Dec. 1996.
15. D. MacDonald, N. Kabani, D. Avis, and A. C. Evans, "Automated 3-D extraction of inner and outer surfaces of cerebral cortex from MRI," NeuroImage, vol. 12, no. 3, pp. 340-356, 2000.
16. W. H. Liao, L. Vese, S. C. Huang, M. Bergsneider, and S. Osher, "Computational anatomy and implicit object representation: a level set approach," in Proc. 2nd Int. Workshop Biomedical Image registration (WBIR 2003), J. C. Gee, Ed. et al., Philadelphia, PA, Jun. 2003, pp. 40-49.
17. X. Han, D. Pham, D. Tosun, M. E. Rettmann, C. Xu, and J. L. Price, "CRUISE: cortical reconstruction using implicit surface evolution," NeuroImage, vol. 23, pp. 997-1012, 2004.
18. X. Han, C. Xu, and J. L. Price, "A topology preserving level set method for geometric deformable models," IEEE Trans. Pattern Anal. Mach. Intell., vol. 25, no. 6, pp. 755-768, Jun. 2003.
19. D. W. Shattuck and R. M. Leahy, "Briansuite: an automated surface identification tool," Med. Image Anal., vol. 6, no. 2, pp. 129-142, 2002.
20. A. A. Amini, T. E. Weumouth, and R. C. Jain, "Using dynamic programming for solving variational problems in vision," IEEE Trans. Pattern Anal. Mach. Intell., vol. 12, no. 9, pp. 855-867, Sep. 1990.
21. D. J. Williams and M. Shah, "A fast algorithm for active contours and curvature estimation," CVGIP: Image Understanding, vol. 55, no. 1, pp. 14-26, 1992.
22. D. Terzopoulos, A. Witkin, and M. Kass, "Constraints on deformable models: recovering 3D shape and nonrigid motion," Artif. Intell., vol. 36, no. 1, pp. 91-123, 1988.
23. L. Cohen and I. Cohen, "Finite element methods for active contour models and balloons for 2D and 3D images," IEEE Trans. Pattern Anal Mach. Intell., vol. 15, no. 11, pp. 1131-1147, Nov. 1993.
24. J. C. Gee, D. R. Haynor, M. Reivich, and R. K. Bajcsy, M. H. Loew, Ed., "Finite element approach to warping of brain images," Proc. SPIE Medical Imaging: Image Processing, vol. 2167, pp. 327-337, 1994.
25. T. McInerney and D. Terzopoulos, "A dynamic finite element surface model for segmentation and tracking in multidimensional medical images with application to cardiac 4D image analysis," Computerized Medical Imaging and Graphics, vol. 19, no. 1, pp. 69-83, 1995.
26. D. Terzopoulos and D. Metaxas, "Dynamic 3D models with local and global deformations: deformable superquadrics," IEEE Trans. Pattern Anal. Mach. Intell., vol. 13, no. 7, pp. 703-714, Jul. 1991.
27. M. Xu and W. L. Nowinski, "Talairach-tournoux brain atlas registration using a metalforming principle-based finite element method," Med. Image Anal., vol. 5, no. 2, pp. 271-279, 2001.
28. M. Ferrant, A. Nabavi, B. Macq, F. A. Jolesz, R. Kikinis, and S. K. Warfield, "Registration of 3D interoperative MR images of the brain using a finite element biomechanical model," IEEE Trans. Med. Imag., vol. 20, no. 12, pp. 1384-1397, Dec. 2001.
29. O. C. Zienkiewicz, The Finite. Element Method (3rd edition). Maidenhead, U.K.: McGraw-Hill, 1977.
30. W. K. Liu, J. Sun, and Y. F. Zhang, "Reproducing kernel particle method," Int. J. Numer. Meth. Fluids, vol. 20, pp. 1081-1106, 1995.
31. P. A. F. Martins and S. B. Petersen, "Finite element remeshing: a metal forming approach for quadrilateral mesh generation and refinement," Int. J. Numer. Meth. Eng., vol. 40, no. 8, pp. 1449-1464, 1997.
32. J. J. Monaghan, "An introduction to smooth particle hydrodynamics," Comput. Phys. Commun., vol. 48, pp. 89-96, 1988.
33. B. Nayroles, G. Touzot, and P. Villon, "Generalizing the finite element method: diffuse approximation and diffuse elements," Comp. Mech., vol. 10, pp. 307-318, 1992.
34. T. Belytschko, L. Gu, and Y. Y. Lu, "Fracture and crack growth by element-free galerkin methods," Model Simul. Mater. Sci. Eng., vol. 2, pp. 519-534, 1994.
35. C. A. Duarte and J. T. Oden, "Hp clouds- an hp meshless method," Numer. Meth. Part. Diff. Eqs., vol. 12, no. 6, pp. 673-705, 1996.
36. C. Moenning, F. Memoli, G. Sapiro, N. Dyn, and N. A. Dodgson, "Meshless Geometric Subdivision," Univ. Minnesota, Minneapolis, Tech. Rep. IMA Preprint Series #2001, 2004.
37. R. Kimmel and J. A. Sethian, "Computing geodesic paths on manifolds," Proc. Nat. Acad. Sci., vol. 95, pp. 8431-8435, 1998.
38. H. K. Zhao and S. Osher, "Implicit and nonparametric shape reconstruction from unorganized points using variational level set method," Comput. Vis. Image Understanding, vol. 80, no. 3, pp. 295-319, 2000.
39. P. S. Jensen, "Finite difference techniques for variable gridpoints," Comput. Structure, no. 2, pp. 17-29, 1972.
40. N. Perrone and R. Kao, "A general finite difference method for arbitrary meshes," Comput. Structure, no. 5, pp. 45-58, 1975.
41. J. L. Prince and C. Xu, "Snakes, shapes, and gradient vector flow," IEEE Trans. Image Process., vol. 7, no. 3, pp. 359-369, Mar. 1998.
42. J. C. Olivo, "Automatic threshold selection using the wavelet transform," GVGIP: Graphical Models and Image Processing, vol. 56, no. 3, pp. 205-218, 1994.
43. T. J. Liszka, A. A. M. Duarte, and W. W. Tworzydlo, "Hp meshless cloud method," Comp. Meth. Appl. Mech. Eng., vol. 139, pp. 263-288, 1996.
44. R. Malladi and J. A. Sethian, "An O(N log N) algorithm for shape modeling," Proc. Nat. Acad. Sci., vol. 93, pp. 9389-9392, 1996.
45. J. S. Chen, C. Pan, and C. T. Wu, "Large deformation analysis of rubber based on a reproducing kernel particle method," Comp. Mech., vol. 19, pp. 211-227, 1997.
46. C. A. Cocosco, V. Kollokian, R. K. S. Kwan, and A. C. Evans, "Brainweb: online interface to a 3D MRI simulated brain database," NeuroImage, vol. 5, no. 4, p. 425, 1997.
47. W. E. Lorensen and H. E. Cline, "Marching cubes: a high resolution 3D surface construction algorithm," Comput. Graphics, vol. 21, no. 4, pp. 163-170, 1987.