An overview of image analysis in multidimensional biological microscopy

ICASSP, IEEE International Conference on Acoustics, Speech and Signal Processing - Proceedings

Volumn 5, Issue , 2006, Pages

  Olivo Marin, J C ^a  

^a CNRS   (France)

Author keywords

[No Author keywords available]

Indexed keywords

CELLS; FLUORESCENCE MICROSCOPY; IMAGE SEGMENTATION; PATHOGENS;

BIOLOGICAL MICROSCOPY; CELL BIOLOGY; MOTILITY ANALYSIS; PARTICLE TRACKING;

IMAGE ANALYSIS;

EID: 33947634555     PISSN: 15206149     EISSN: None     Source Type: Conference Proceeding    
DOI: None     Document Type: Conference Paper

References (34)

1. T.E. Merrymann and J. Kovacevic, "An Adaptive Multirate Algorithm for Acquisition of Fluorescence Microscopy Data Sets," IEEE Trans. Image Processing, vol. 14, no. 9, pp. 1246-1253, 2005.
2. C. Ortiz-de-Solorzano, R. Malladi, S. A. Lelièvre, and S. J. Lockett, "Segmentation of Nuclei and Cells using Membrane Related Protein Markers," J. Microscopy, vol. 201, no. 3, pp. 404-415, March 2001.
3. T. Zhao, M. Velliste, M.V. Boland, and R.F. Murphy, "Object Type Recognition for Automated Analysis of Protein Subcellular Location," IEEE Trans. Image Processing, vol. 14, no. 9, pp. 1351-1359, 2005.
4. M.G. Gustafsson, "Nonlinear Structured-Illumination Microscopy: Wide-Field Fluorescence Imaging with Theoretically Unlimited Resolution," PNAS, vol. 102, no. 37, pp. 13081-13086, 2005.
5. J. Gelles, B. J. Schnapp, and M.P. Sheetz, "Tracking kinesin-driven movements with nanometre-scale precision," Nature, vol. 331, pp. 450-453, 1988.
6. D. Thomann, D.R. Rines, P.K. Sorger, and G. Danuser, "Automatic Fluorescent Tag Detection in 3D with Super-Resolution: Application to the Analysis of Chromosome Movement," J. Microsc., vol. 208, pp. 49-64, October 2002.
7. C. Murphy, R. Saffrich, J.-C. Olivo-Marin, A. Giner, W. Ansorge, T. Fotsis, and M. Zerial, "Dual function of rhod in vesicular movement and cell motility.," Eur. Journal of Cell Biology, vol. 80, no. 6, pp. 391-398, 2001.
8. F. Frischknecht, P. Baldacci, B. Martin, C. Zimmer, S. Thiberge, J.-C. Olivo-Marin, S. L. Shorte, and R. Menard, "Imaging Movement of Malaria Parasites during Transmission by Anopheles Mosquitoes.," Cell Microbiol., vol. 6, no. 7, pp. 687-94, Jul 2004.
9. V. Galy, J.-C. Olivo-Marin, H. Scherthan, V. Doyle, N. Rascalou, and U. Nerhbass, "Nuclear Pore Complexes in the Organization of Silent Telomeric Chromatin," Nature, vol. 403, pp. 108-112, 2000.
10. J. Apgar, Y. Tseng, E. Federov, M.B. Herwig, S.C. Almo, and D. Wirtz, "Multiple-particle tracking measurements of heterogeneities in solutions of actin filaments and actin bundles," Biophys. J., vol. 79, pp. 1095-1106, 2000.
11. F. Briquet-Laugier, C. Boulin, and J.-C. Olivo-Marin, "Analysis of moving biological objects in video microscopy sequences.," Proc. of SPIE, vol. 3642, pp. 1-11, 1998.
12. J.C. Crocker and D.G. Grier, "Methods of digital video microscopy for colloidal studies," J. Colloid Interface Sci., vol. 179, pp. 298-310, 1996.
13. W. Tvarusko, M. Bentele, T. Misteli, R. Rudolf, C. Kaether, D. L. Spector, H. H. Gerdes, and R. Eils, "Time-resolved analysis and visualization of dynamic process in living cells." PNAS, vol. 96, pp. 7950-7955, 1999.
14. P. Vallotton, A. Ponti, C.M. Waterman-Storer, E.D. Salmon, and G. Danuser, "Recovery, visualization, and analysis of actin and tubulin polymer flow in live cells: a fluorescent speckle microscopy study," Biophys. J., vol. 85, pp. 1289-1306, 2003.
15. S. Bonneau, M. Dahan, and L.D. Cohen, "Single quantum dot tracking based on perceptual grouping using minimal paths in a spatiotemporal volume," IEEE Trans. Image Processing, vol. 14, no. 9, pp. 1384-1395, 2005.
16. D. Sage, F.R. Neumann, F. Hediger, S. Gasser, and M. Unser, "Automatic tracking of individual fluorescence particles: Application to the study of chromosome dynamics," IEEE Trans. Image Processing, vol. 14, no. 9, pp. 1372- 1383, 2005.
17. A. Genovesio, B. Zhang, and J.-C. Olivo-Marin, "Tracking of multiple fluorescent biological objects in three dimensional video microscopy," IEEE International Conference on Image Processing ICIP 2003, vol. I, pp. 1105-1108, September 2003, Barcelona, Spain.
18. A. Genovesio and J.-C. Olivo Marin, "Interracting multiple model based method to track moving fluorescent biological spots," IEEE International Symposium on Biomedical Imaging, ISBI'04, pp. 1239-1242, April 2004, Arlington, USA.
19. Y. Bar-Shalom and T.E. Fortmann, Tracking and Data Association, Academic Press, New-York, 1988.
20. M.S. Arulampalam, S. Maskell, N. Gordon, and T. Clapp, "A tutorial on particle filters for online nonlinear/non-gaussian bayesian tracking," IEEE Transaction on Signal Processing, vol. 50, no. 2, pp. 174-188, 2002.
21. H. A. P. Blom and Y. Bar-Shalom, "The interacting multiple model algorithm for systems with markovian switching coefficients," IEEE Transaction on Automatic Control, vol. 33, no. 8, pp. 780-783, August 1988.
22. M. Lakadamyali, M.J. Rust, H.P. Babcock, and X. Zhuang, "Visualizing infection of individual influenza viruses," PNAS, vol. 100, pp. 9280-9285, 2003.
23. Y. Bar-Shalom and W. Dale Blair, Multitarget-Multisensor Tracking Applications and Advances, vol. Ill, Artech House, Oct 2000.
24. D. B. Reid, "An algorithm for tracking multiple targets," IEEE Transaction on Automatic Control, vol. AC-24, pp. 843-854, December 1979.
25. R. Jonker and A. Volgenant, "A shortest augmenting path algorithm for dense and sparse linear assignment problems.," Computing, vol. 38, pp. 325-340, 1987.
26. A. Genovesio and J.-C. Olivo Marin, "Split and merge data association filter for dense multi-target tracking," ICPR 2004 (International Conference on Pattern recognition), August 2004, Cambridge (UK).
27. M. Kass, A. Witkin, and D. Terzopoulos, "Snakes: Active Contour Models," Int'l J. Computer Vision, vol. 1, pp. 321-331, 1988.
28. C. Xu and J. L. Prince, "Snakes, Shapes, and Gradient Vector Flow," IEEE Trans. Image Processing, vol. 7, no. 3, pp. 359-369, 1998.
29. T.F. Chan and L.A. Vese, "Active Contours Without Edges," IEEE Trans. Image Processing, vol. 10, no. 2, pp. 266-277, 2001.
30. J.A. Sethian, Level Set Methods and Fast Marching Methods, Cambridge University Press, New York, 1999.
31. C. Zimmer, E. Labruyère, V. Meas-Yedid, N. Guillén, and J.-C. Olivo-Marin, "Segmentation and Tracking of Migrating Cells in Videomicroscopy with Parametric Active Contours," IEEE Trans. Medical Imaging, vol. 21, pp. 1212-1221, 2002.
32. B. Zhang, C. Zimmer, and J-C. Olivo-Marin, "Tracking Fluorescent Cells With Coupled Geometric Active Contours," Proc. IEEE Int'l Symp. Biomedical Imaging (ISBI 2004), pp. 476-479, 2004.
33. A. Dufour, V. Shinin, S. Tajbakhsh, N. Guillén, J.-C. Olivo-Marin, and C. Zimmer, "Segmenting and Tracking Fluorescent Cells in dynamic 3-D Microscopy with Coupled Active Surfaces," IEEE Trans. Image Processing, vol. 14, no. 9, pp. 1396-1410, September 2005.
34. C. Zimmer and J.-C. Olivo-Marin, "Coupled Parametric Active Contours," IEEE Trans. Pattern Analysis and Machine Intelligence, vol. 27, no. 11, pp. 1838-1842, 2005.