Non parametric cell nuclei segmentation based on a tracking over depth from 3D fluorescence confocal images

Proceedings - International Symposium on Biomedical Imaging

Volumn , Issue , 2012, Pages 170-173

  Pecot, Thierry ^a   Singh, Shantanu ^a   Caserta, Enrico ^a   Huang, Kun ^a   MacHiraju, Raghu ^a   Leone, Gustavo ^a  

^a OHIO STATE UNIVERSITY   (United States)

Author keywords

Detection; fluorescence confocal microscopy; tracking over depth

Indexed keywords

3D FLUORESCENCES; 3D PROFILE; BIOLOGICAL STUDIES; CELL NUCLEI SEGMENTATION; CELL NUCLEUS; CONFOCAL IMAGE; FLUORESCENCE CONFOCAL MICROSCOPY; FLUORESCENCE MICROSCOPY IMAGES; GRAPH-BASED; IMAGE PLANE; NON-PARAMETRIC; NONPARAMETRIC METHODS;

CONFOCAL MICROSCOPY; ERROR DETECTION; FLUORESCENCE; FLUORESCENCE MICROSCOPY; MEDICAL IMAGING;

THREE DIMENSIONAL;

EID: 84864861879     PISSN: 19457928     EISSN: 19458452     Source Type: Conference Proceeding    
DOI: 10.1109/ISBI.2012.6235511     Document Type: Conference Paper

References (17)

1. A. Dufour, V. Shinin, S. Tajbakhsh, N. Guillen, J.-C. Olivo-Marin, and C. Zimmer, "Segmenting and tracking fluorescent cells in dynamic 3-D microscopy with coupled active surfaces," IEEE Trans. Image Process., vol. 14, no. 9, pp. 1396-1410, 2005.
2. K. Mosaliganti, L. Cooper, R. Sharp, R. Machiraju, G. Leone, K. Huang, and J. Saltz, "Reconstruction of cellular biological structures from optical microscopy data," IEEE Trans. on Vis. and Comp. Graphics, vol. 14, no. 4, pp. 863-876, 2008.
3. G. Lin, U. Adiga, K. Olson, J.F. Guzowski, C.A. Barnes, and B. Roysam, "A hybrid 3D watershed algorithm incorporating gradient cues and object models for automatic segmentation of nuclei in confocal image stacks," Cytometry A., vol. 56, no. 1, pp. 23-36, 2003.
4. J. Cheng and J.C. Rajapakse, "Segmentation of clustered nuclei with shape markers and marking function," IEEE Trans. on Biomedical Engin., vol. 56, no. 3, pp. 741-748, 2009.
5. G. Li, T. Liu, A. Tarokh, J. Nie, L. Guo, A. Mara, S. Holley, and S. Wong, "3D cell nuclei segmentation based on gradient flow tracking," BMC Cell Biology, vol. 40, no. 8, pp. http://www.biomedcentral.com/1471-2121/8/ 40, 2007.
6. D. Thomann, D.R. Rines, P.K. Sorger, and G. Danuser, "Automatic fluorescent tag detection in 3D with superresolution: application to the analysis of chromosome movement," Journal of Microscopy, vol. 208, Oct. 2002.
7. D. Sage, H. Hediger, S.M. Gasser, and M. Unser, "Automatic tracking of particles in dynamic fluorescence microscopy," in Proceedings of the Third International Symposium on Image and Signal Processing and Analysis, Sept. 2003, pp. I.582-I.586.
8. T. Pécot, A. Chessel, S. Bardin, J. Salamero, P. Bouthemy, and C. Kervrann, "Conditional random fields for object and background estimation in fluorescence video-microscopy," in Int. Symp. on Biomedical Imaging, Boston, 2009, pp. 734-737.
9. S.R. Sternberg, "Biomedical image processing," IEEE Computer, vol. 16, no. 1, pp. 22-34, Jan. 1983.
10. L. Vincent, "Morphological grayscale reconstruction in image analysis: Applications and efficient algorithms," IEEE Transactions on Image Processing, vol. 2, no. 2, pp. 176-201, 1993.
11. A. Chessel, B. Cinquin, S. Bardin, C. Kervrann, and Salamero J., "Computational geometry-based scale-space and modal image decomposition: Application to light video-microscopy imaging," in Conference on Scale Space and Variational Methods, Voss, June 2009, vol. 5567, pp. 770-781.
12. J.C. Olivo-Marin, "Extraction of spots in biological images using multi-scale products," Pattern Recognition, vol. 35, pp. 1989-1996, 2002.
13. J.L. Starck, J. Fadili, and F. Murtagh, "The undecimated wavelet decomposition and its reconstruction," Image Processing, vol. 16, no. 2, pp. 297-309, 2007.
14. P.K. Sahoo, D.W. Slaaf, and T.A. Albert, "Threshold selection using a minimal histogram entropy difference," Society of Photo-Optical Instrumentation Engineers, vol. 36, Mar. 1997.
15. L.D. Cohen and R. Kimmel, "Global minimum for active contour models: A minimal path approach," Internation Journal of Computer Vision, vol. 24, pp. 57-78, Aug. 1997.
16. V. Racine, M. Saschse, J. Salamero, V. Fraisier, A. Trubuil, and J.B. Sibarita, "Visualization and quantification of vesicle trafficking on a 3D cytoskeleton network in living cells," Journal of Microscopy, pp. 214-228, Mar. 2007.
17. L.D. Cohen, "Minimal paths and fast marching methods for image analysis," Mathematical Models in Computer Vision: the Handbook, 2005.