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Dynamic Tree-Based Large-Deformation Image Registration for Multi-atlas Segmentation

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Book cover Medical Computer Vision: Algorithms for Big Data (MCV 2015)

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Abstract

Multi-atlas segmentation is a powerful approach to automated anatomy delineation via fusing label information from a set of spatially normalized atlases. For simplicity, many existing methods perform pairwise image registration, leading to inaccurate segmentation especially when shape variation is large. In this paper, we propose a dynamic tree-based strategy for effective large-deformation registration and multi-atlas segmentation. To deal with local minima caused by large shape variation, coarse estimates of deformations are first obtained via alignment of automatically localized landmark points. A dynamic tree capturing the structural relationships between images is then used to further reduce misalignment errors. Validation on two real human brain datasets, ADNI and LPBA40, shows that our method significantly improves registration and segmentation accuracy.

D. Shen—This work was supported in part by a UNC BRIC-Radiology start-up fund, and NIH grants (EB006733, EB008374, EB009634, MH088520 and NIHM 5R01MH091645-02).

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Notes

  1. 1.

    http://adni.loni.usc.edu/.

References

  1. Asman, A.J., Landman, B.A.: Non-local statistical label fusion for multi-atlas segmentation. Med. Image Anal. 17(2), 194–208 (2013)

    Article  Google Scholar 

  2. Bai, W., Shi, W., Ledig, C., Rueckert, D.: Multi-atlas segmentation with augmented features for cardiac MR images. Med. Image Anal. 19(1), 98–109 (2015)

    Article  Google Scholar 

  3. Criminisi, A., Shotton, J., Konukoglu, E.: Decision forests: a unified framework for classification, regression, density estimation, manifold learning and semi-supervised learning. Found. Trends\({^{\textregistered }}\) Comput. Graph. Vis. 7(2–3), 81–227 (2012)

    Google Scholar 

  4. Han, D., Gao, Y., Wu, G., Yap, P.-T., Shen, D.: Robust anatomical landmark detection for MR brain image registration. In: Golland, P., Hata, N., Barillot, C., Hornegger, J., Howe, R. (eds.) MICCAI 2014, Part I. LNCS, vol. 8673, pp. 186–193. Springer, Heidelberg (2014)

    Google Scholar 

  5. Hoang Duc, A.K., Modat, M., Leung, K.K., Cardoso, M.J., Barnes, J., Kadir, T., Ourselin, S.: Using manifold learning for atlas selection in multi-atlas segmentation. PLoS ONE 8(8), e70059 (2013)

    Article  Google Scholar 

  6. Jenkinson, M., Smith, S.: A global optimisation method for robust affine registration of brain images. Med. Image Anal. 5(2), 143–156 (2001)

    Article  Google Scholar 

  7. Jia, H., Yap, P.T., Shen, D.: Iterative multi-atlas-based multi-image segmentation with tree-based registration. NeuroImage 59(1), 422–430 (2012)

    Article  Google Scholar 

  8. Rohlfing, T., Brandt, R., Menzel, R., Maurer, C.R.: Evaluation of atlas selection strategies for atlas-based image segmentation with application to confocal microscopy images of bee brains. NeuroImage 21(4), 1428–1442 (2004)

    Article  Google Scholar 

  9. Shattuck, D.W., Mirza, M., Adisetiyo, V., Hojatkashani, C., Salamon, G., Narr, K.L., Poldrack, R.A., Bilder, R.M., Toga, A.W.: Construction of a 3D probabilistic atlas of human cortical structures. NeuroImage 39(3), 1064–1080 (2008)

    Article  Google Scholar 

  10. Vercauteren, T., Pennec, X., Perchant, A., Ayache, N.: Diffeomorphic demons: efficient non-parametric image registration. NeuroImage 45(Supplement 1), 61–72 (2009)

    Article  Google Scholar 

  11. Wolz, R., Chu, C., Misawa, K., Fujiwara, M., Mori, K., Rueckert, D.: Automated abdominal multi-organ segmentation with subject-specific atlas generation. IEEE Trans. Med. Imaging 32(9), 1723–1730 (2013)

    Article  Google Scholar 

  12. Zhang, D., Guo, Q., Wu, G., Shen, D.: Sparse patch-based label fusion for multi-atlas segmentation. In: Yap, P.-T., Liu, T., Shen, D., Westin, C.-F., Shen, L. (eds.) MBIA 2012. LNCS, vol. 7509, pp. 94–102. Springer, Heidelberg (2012)

    Chapter  Google Scholar 

  13. Zhang, P., Cootes, T.F.: Automatic construction of parts+geometry models for initialising groupwise registration. IEEE Trans. Med. Imaging 31(2), 341–358 (2012)

    Article  Google Scholar 

  14. Zhang, Y., Brady, M., Smith, S.: Segmentation of brain MR images through a hidden Markov random field model and the expectation-maximization algorithm. IEEE Trans. Med. Imaging 20(1), 45–57 (2001)

    Article  Google Scholar 

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Correspondence to Dinggang Shen .

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Zhang, P., Wu, G., Gao, Y., Yap, PT., Shen, D. (2016). Dynamic Tree-Based Large-Deformation Image Registration for Multi-atlas Segmentation. In: Menze, B., et al. Medical Computer Vision: Algorithms for Big Data. MCV 2015. Lecture Notes in Computer Science(), vol 9601. Springer, Cham. https://doi.org/10.1007/978-3-319-42016-5_13

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  • DOI: https://doi.org/10.1007/978-3-319-42016-5_13

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