Deformation-based nonlinear dimension reduction: Applications to nuclear morphometry

2008 5th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, Proceedings, ISBI

Volumn , Issue , 2008, Pages 500-503

  Rohde, Gustavo K ^a   Wang, Wei ^a   Peng, Tao ^a   Murphy, Robert F ^a,b,c  

^a CARNEGIE MELLON UNIVERSITY   (United States)

^b CARNEGIE MELLON UNIVERSITY   (United States)

^c NONE   (United States)

Author keywords

Dimension reduction; Image registration; Nonlinear; Nuclear shape analysis

Indexed keywords

DEFORMATION; MECHANICS;

DIMENSION REDUCTION; IMAGE REGISTRATION; NONLINEAR; NUCLEAR SHAPE ANALYSIS; SHAPE DISTRIBUTIONS;

IMAGE RETRIEVAL;

EID: 51049116194     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/ISBI.2008.4541042     Document Type: Conference Paper

References (23)

1. U. Grenander and M. I. Miller, "Computational anatomy: an emerging discipline," Quart. Appl. Math., vol. 56, no. 4, pp. 617-694, 1998.
2. A. Guimond, J. Meunier, and J.-P. Thirion, "Average brain models: a convergence study," Comput. Vis. Image Underst., vol. 77, no. 2, pp. 192-210, 2000.
3. S. Joshi, B. Davis, M. Jomier, and G. Gerig, "Unbiased diffeomorphic atlas construction for computational anatomy," Neuroimage, vol. 23, pp. S151-S160, 2004.
4. B. Avants and J. C. Gee, "Geodesic estimation for large deformation anatomical shape averaging and interpolation," Neuroimage, vol. 23, no. S139-S150, 2004.
5. J. Ashburner, C. Hutton, R. Frackowiak, I. Johnsrude, C. Price, and K. Friston, "Identifying global anatomical differences: Deformation-based morphometry," Human Brain Mapping, vol. 6, pp. 348-357, 1998.
6. D. Rueckert, A. F. Frangi, and J. A. Schnabel, "Automatic construction of 3-d statistical deformation models of the brain using nonrigid registration," IEEE Trans. Med. Imag., vol. 22, no. 8, pp. 1014-1025, 2003.
7. T. F. Cootes, C. J. Taylor, D. H. Cooper, and J. Graham, "Active shape models: their training and application," Comput. Vis. Image Underst., vol. 61, no. 1, pp. 38-59, 1995.
8. M. Vaillant, M.I. Miller, L. Younes, and A. Trouve, "Statistics on diffeomorphisms via tangent space representations," Neuroimage, vol. 23, pp. S161-S169, 2004.
9. P. T. Fletcher, C. L. Lu, S. A. Pizer, and S. Joshi, "Principal geodesic analysis for the study of nonlinear statistics of shape," IEEE Trans. Med. Imag., vol. 23, pp. 995-1005, 2004.
10. M. I. Miller, "Computational anatomy: shape, growth, and atrophy comparison via diffeomorphisms," Neuroimage, vol. 23, pp. S19-S33, 2004.
11. D. Zink, A. H. Fischer, and J. A. Nickerson, "Nuclear structure in cancer cells," Nat. Rev. Cancer, vol. 4, no. 677-687, 2004.
12. K. N. Dahl, P. Scaffidi, M. I. Islam, A. G. Yodh, K. L Wilson, and T. Misteli, "Distinct structural and mechanical properties of the nuclear lamina in Hutchinson-Gilford progeria syndrom," Proc. Natl. Acad. Sci., vol. 103, pp. 10271-10276, 2006.
13. C.H. Thomas, J. H. Collier, C. S. Sfeir, and K. E. Healy, "Engineering gene expression and protein synthesis by modulation of nuclear shape.," Proc. Natl. Acad. Sci., vol. 99, pp. 1972-1977, 2002.
14. M.V. Boland and R.F. Murphy, "A neural network classifier capable of recongnizing all major subcellular structures in fluorescence microscope images of hela cells," Bioinformatics, vol. 17, pp. 1213-1223, 2001.
15. N Otsu, "Threshold selection method from gray-level histograms," IEEE Trans. Syst. Man. Cybern, vol. 9, pp. 62-66, 1979.
16. P. Dupuis, U. Grenander, and M. Miller, "Variational problems on flows of diffeomorphisms for image matching," Quart. Appl. Math., vol. 56, pp. 587-600, 1998.
17. M.F. Beg, M.I. Miller, A. Trouve, and L. Younes, "Computing large deformation metric mappings via geodesic flows of diffeomorphisms," Intern. J. Comp. Vis., vol. 61, no. 2, pp. 139-157, 2005.
18. L.K. Saul, K. Q. Weinberger, J. H. Ham, F. Sha, and D.D. Lee, Semisupervised Learning, chapter Spectral methods for dimensionality reduction, MIT Press, 2006.
19. J.B. Tenembaum, V. de Silva, and J. C. Langford, "A global geometric framework for nonlinear dimensionality reduction," Science, vol. 290, pp. 2319-2323, 2000.
20. D. L. Donoho and C. Grimes, "When does ISOMAP recover the natural parameterization of families of articulated images?," Tech. Rep. 2002-27, Stanford, 2002.
21. G.K. Rohde, A. J. S. Ribeiro, K. N. Dahl, and R. F. Murphy, "Deformation-based nuclear morphometry: capturing nuclear shape variation in HeLa cells.," Cytometry A, in press, 2008.
22. S. Yang, S. Kohler, K. Teller, T. Cremer, P. Le Baccon, E. Heard, R. Eils, and K. Rohr, "Non-rigid registration of 3d multi-channel microscopy images of cell nuclei.," in LNCS, 2006, vol. 4190, pp. 907-914.
23. J. Mattes, J. Nawroth, P. Boukamp, R. Eils, and K. M. Greulich-Bode, "Analyzing motion and deformation of the cell nucleus for studying co-localizations of nuclear structures," in Int. Symp. Biomed. Imaging, 2006, pp. 1044-1047.