Elastic 3-D alignment of rat brain histological images

A three-dimensional wavelet-based algorithm for nonlinear registration of an elastic body model of the brain is developed. Surfaces of external and internal anatomic brain structures are used to guide alignment. The deformation field is represented with a multiresolution wavelet expansion and is modeled by the partial differential equations of linear elasticity. A progressive estimation of the registration parameters and the usage of an adaptive distance map reduce algorithm complexity, thereby providing computational flexibility that allows mapping of large, high resolution datasets. The performance of the algorithm was evaluated on rat brains. The wavelet-based registration method yielded a twofold improvement over affine registration.

[1]  M I Miller,et al.  Mathematical textbook of deformable neuroanatomies. , 1993, Proceedings of the National Academy of Sciences of the United States of America.

[2]  Simon R. Arridge,et al.  A survey of hierarchical non-linear medical image registration , 1999, Pattern Recognit..

[3]  Dinggang Shen,et al.  HAMMER: hierarchical attribute matching mechanism for elastic registration , 2002, IEEE Transactions on Medical Imaging.

[4]  Maria Gabrani,et al.  Surface-based matching using elastic transformations , 1999, Pattern Recognit..

[5]  Jerry L. Prince,et al.  Brain image registration based on curve mapping , 1994, Proceedings of IEEE Workshop on Biomedical Image Analysis.

[6]  D. Marquardt.  An Algorithm for Least-Squares Estimation of Nonlinear Parameters , 1963 .

[7]  Yali Amit,et al.  A Nonlinear Variational Problem for Image Matching , 1994, SIAM J. Sci. Comput..

[8]  Roman Goldenberg,et al.  Fast Geodesic Active Contours , 1999, Scale-Space.

[9]  P.L. Carson,et al.  Rapid elastic image registration for 3-D ultrasound , 2002, IEEE Transactions on Medical Imaging.

[10]  Michael Unser,et al.  A pyramid approach to subpixel registration based on intensity , 1998, IEEE Trans. Image Process..

[11]  S. Mallat.  A wavelet tour of signal processing , 1998 .

[12]  Jean Duchon,et al.  Interpolation des fonctions de deux variables suivant le principe de la flexion des plaques minces , 1976 .

[13]  Isaac N. Bankman,et al.  Handbook of medical imaging , 2000 .

[14]  A. Ardeshir Goshtasby,et al.  Registration of images with geometric distortions , 1988 .

[15]  Christos Davatzikos.  Nonlinear registration of brain images using deformable models , 1996, Proceedings of the Workshop on Mathematical Methods in Biomedical Image Analysis.

[16]  James C. Gee,et al.  Finite element approach to warping of brain images , 1994, Medical Imaging.

[17]  Cengizhan Ozturk,et al.  Multidimensional Alignment Using the Euclidean Distance Transform , 1997, CVGIP Graph. Model. Image Process..

[18]  Laurent D. Cohen,et al.  A new Image Registration technique with free boundary constraints: application to mammography , 2003, Comput. Vis. Image Underst..

[19]  Stephen J. Wright,et al.  Numerical Optimization , 2018, Fundamental Statistical Inference.

[20]  Gary E. Christensen,et al.  Consistent landmark and intensity-based image registration , 2002, IEEE Transactions on Medical Imaging.

[21]  Truong Q. Nguyen,et al.  Wavelets and filter banks , 1996 .

[22]  Ruzena Bajcsy,et al.  Multiresolution elastic matching , 1989, Comput. Vis. Graph. Image Process..

[23]  Paul J. Besl,et al.  A Method for Registration of 3-D Shapes , 1992, IEEE Trans. Pattern Anal. Mach. Intell..

[24]  Xiao Han,et al.  A Topology Preserving Level Set Method for Geometric Deformable Models , 2003, IEEE Trans. Pattern Anal. Mach. Intell..

[25]  Torsten Rohlfing,et al.  Volume-preserving nonrigid registration of MR breast images using free-form deformation with an incompressibility constraint , 2003, IEEE Transactions on Medical Imaging.

[26]  Jean-Christophe Olivo-Marin,et al.  A Wavelet-Based Multiresolution Method to Automatically Register Images , 1997, Journal of Mathematical Imaging and Vision.

[27]  Fred L. Bookstein,et al.  Principal Warps: Thin-Plate Splines and the Decomposition of Deformations , 1989, IEEE Trans. Pattern Anal. Mach. Intell..

[28]  Aaas News,et al.  Book Reviews , 1893, Buffalo Medical and Surgical Journal.

[29]  J. Meinguet.  Multivariate interpolation at arbitrary points made simple , 1979 .

[30]  Po-Lei Lee,et al.  Discrete signal matching using coarse-to-fine wavelet basis functions , 2003, Pattern Recognit..

[31]  Jelena Kovacevic,et al.  Wavelets and Subband Coding , 2013, Prentice Hall Signal Processing Series.

[32]  B. Vemuri,et al.  A level-set based approach to image registration , 2000, Proceedings IEEE Workshop on Mathematical Methods in Biomedical Image Analysis. MMBIA-2000 (Cat. No.PR00737).

[33]  Max A. Viergever,et al.  A survey of medical image registration , 1998, Medical Image Anal..

[34]  Ingrid Daubechies,et al.  Ten Lectures on Wavelets , 1992 .

[35]  C. Broit.  Optimal registration of deformed images , 1981 .

[36]  Bernard W. Silverman,et al.  A Wavelet Based Approach to Deformable Templates , 1996 .