Model-based segmentation and quantification of subcellular structures in 2D and 3D fluorescent microscopy images

Progress in Biomedical Optics and Imaging - Proceedings of SPIE

Volumn 6916, Issue , 2008, Pages

  Wörz, Stefan ^a   Heinzer, Stephan ^a   Weiss, Matthias ^a   Rohr, Karl ^a  

^a UNIVERSITY OF HEIDELBERG   (Germany)

Author keywords

Cell segmentation; Model fitting; Parametric intensity model; Subcellular structures

Indexed keywords

CURVE FITTING; IMAGE SEGMENTATION; MATHEMATICAL MODELS; OPTICAL MICROSCOPY; PARAMETER ESTIMATION; PROBLEM SOLVING;

CELL SEGMENTATION; MODEL FITTING; PARAMETRIC INTENSITY MODELS; SUBCELLULAR STRUCTURES;

CELL GROWTH;

EID: 44349189716     PISSN: 16057422     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1117/12.769453     Document Type: Conference Paper

References (15)

1. B. Storrie, J. White, S. Röttger, E. Stelzer, T. Suganuma, and T. Nilsson, "Recycling of Golgi-resident Glycosyltransferases through the ER Reveals a Novel Pathway and Provides an Explanation for Nocodazole-induced Golgi Scattering," J. of Cell Biology 143(6), pp. 1505-1521, 1998.
2. C. Vonesch, F. Aguet, J.-L. Vonesch, and M. Unser, "The Colored Revolution of Bioimaging," IEEE Signal Processing Magazine 23(3), pp. 20-31, 2006.
3. H.-S. Wu, L. Deligdisch, and J. Gil, "Segmentation of microscopy nuclear images - A review," in Recent Research Developments in Electronics, Vol. 2, pp. 1-18, Transworld Research Publishing, Kerala, 2004.
4. D. Thomann, D. Rines, P. Sorger, and G. Danuser, "Automatic fluorescent tag detection in 3D with super-resolution: application to the analysis of chromosome movement," J. of Microscopy 208, pp. 49-64, 2002.
5. H. Noordmans and A. Smeulders, "Detection and Characterization of Isolated and Overlapping Spots," Computer Vision and Image Understanding 70(1), pp. 23-35, 1998.
6. N. Brändie, H.-Y. Chen, H. Bischof, and H. Lapp, "Robust Parametric and Semi-parametric Spot Fitting for Spot Array Images," in Proc. 8th Internat. Conf. on Intelligent Systems for Molecular Biology (ISMB'00), pp. 46-56,' (La Jolla, CA/USA), Aug. 2000.
7. A. Santos and I. Young, "Model-based resolution: applying the theory in quantitative microscopy," Applied Optics 39(17), pp. 2948-2958, 2000.
8. R. Bernard, M. Kandušer, and F. Pernuš, "Model-based automated detection of mammalian cell colonies," Physics in Medicine and Biology 46, pp. 3061-3072, 2001.
9. G. Seisenberger, M. Ried, T. Endreß, H. Büning, M. Hallek, and C. Bräuchle, "Real-Time Single-Molecule Imaging of the Infection Pathway of an Adeno-Associated Virus," Science 294(5548), pp. 1929-1932, 2001.
10. W. Godinez, M. Lampe, S. Wörz, B. Müller, R. Eils, and K. Rohr, "Tracking of Virus Particles in Time-Lapse Fluorescence Microscopy Image Sequences," in Proc. 4th IEEE Internat. Symposium on Biomedical Imaging: From Nano to Macro (ISBI'07), J. Fessler and T. Denney, eds., pp. 256-259, (Arlington, VA/USA), April 2007.
11. H.-S. Wu, J. Barba, and J. Gil, "A Parametric Fitting Algorithm for Segmentation of Cell Images," IEEE Trans, on Biomedical Engineering 45(3), pp. 400-407, 1998.
12. B. Zhang, J. Enninga, J.-C. Olivo-Marin, and C. Zimmer, "Automated Super-Resolution Detection of Fluorescent Rods in 2D," in Proc. IEEE Internat. Symposium on Biomedical Imaging: From Nano to Macro (ISBI'06), J. Kovačević and E. Meijering, eds., pp. 1296-1299, (Arlington, VA/USA), April 2006.
13. S. Wörz, C. Kappel, R. Eils, and K. Rohr, "Model-based segmentation and quantification of fluorescent bacteria in 3D microscopy live cell images," in Proc. SPIE Medical Imaging 2007: Image Processing, J. Pluim and J. Reinhardt, eds., Proc. SPIE, SPIE, (San Diego, CA/USA), Feb. 2007.
14. D. Marquardt, "An Algorithm for Least-Squares Estimation of Nonlinear Parameters," J. of the Society for Industrial and Applied Mathematics 11, pp. 431-441, 1963.
15. W. Press, B. Flannery, S. Teukolsky, and W. Vetterling, Numerical Recipes in C, Cambridge University Press, Cambridge, UK, 1992.