Motion tracking of the outer tips of microtubules

Medical Image Analysis

Volumn 12, Issue 6, 2008, Pages 689-702

  Hadjidemetriou, Stathis ^a   Toomre, Derek ^b   Duncan, James ^a  

^a YALE UNIVERSITY   (United States)

^b YALE UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

Fluorescence microscopy; Microtubule dynamics; Microtubule outer tips; Subcellular motion tracking; Tubular structure segmentation

Indexed keywords

BIOPOLYMERS; CELLS; CONFOCAL MICROSCOPY; DYNAMICS; FLUORESCENCE MICROSCOPY; LIGHT MEASUREMENT; MICROSCOPIC EXAMINATION; POLYMERS; TUBULAR STEEL STRUCTURES; VISUAL COMMUNICATION;

AUTOMATICALLY TRACKS; CANCER.; CELL MIGRATIONS; IMAGE SEQUENCES; IN CELLS; LIVING CELLS; MANUAL ANNOTATIONS; MECHANICAL SUPPORTS; MICROTUBULE; MICROTUBULE ASSEMBLIES; MICROTUBULE DYNAMICS; MICROTUBULE OUTER TIPS; MICROTUBULE TIPS; MICROTUBULES; MOTION TRACKING; NEURODEGENERATIVE DISEASES; QUANTITATIVE STUDIES; REAL DATUM; SUBCELLULAR MOTION TRACKING; TIP TRAJECTORIES; TUBULAR; TUBULAR STRUCTURE SEGMENTATION; VISUAL INSPECTIONS;

CYTOLOGY;

ANIMAL CELL; ARTICLE; CONFOCAL MICROSCOPY; CONTROLLED STUDY; EPIFLUORESCENCE MICROSCOPY; FLUORESCENCE ANALYSIS; MICROTUBULE ASSEMBLY; MOLECULAR IMAGING; NONHUMAN; PHANTOM; PRIORITY JOURNAL; PROCESS DEVELOPMENT; QUANTITATIVE ANALYSIS; RAT;

ALGORITHMS; ANIMALS; ARTIFICIAL INTELLIGENCE; HUMANS; IMAGE ENHANCEMENT; IMAGE INTERPRETATION, COMPUTER-ASSISTED; MICROSCOPY, FLUORESCENCE; MICROTUBULES; MOTION; MOVEMENT; PATTERN RECOGNITION, AUTOMATED; REPRODUCIBILITY OF RESULTS; SENSITIVITY AND SPECIFICITY;

EID: 54249095091     PISSN: 13618415     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.media.2008.04.004     Document Type: Article

References (69)

1. Altinok, A., El-Saban, M., Peck, A., Wilson, L., Feinstein, S., Manjunath, B., Rose, K., 2006. Activity analysis in microtubule videos by mixture of hidden Markov models. In: Proceedings of Conference on Computer vision and Pattern Recognition.
2. Aylward S., and Bullitt E. Initialization, noise, singularities, and scale in height ridge traversal for tubular object centerline extraction. IEEE Transactions on Medical Imaging 21 2 (2002) 61-75
3. Bonneau S., Dahan M., and Cohen L. Single quantum dot tracking based on perceptual grouping using minimal paths in a spatiotemporal volume. IEEE Transactions on Image Processing 14 9 (2005) 1384-1395
4. Braak H., and Braak E. Staging of Alzheimer's disease-related neurofibrillary changes. Neurobiology of Aging 16 (1995) 271-278
5. Carvalho P., Tirnauer J., and Pellman D. Surfing on microtubule ends. Trends in Cell Biology 13 5 (2003) 229-237
6. Waterman-Storer C.M., and Salmon E. Actomyosin-based retrograde flow of microtubules in the lamella of migrating epithelial cells influences microtubule dynamic instability and turnover and is associated with microtubule breakage and treadmilling. Journal of Cell Biology 139 (1997) 417-434
7. Cohen L., and Kimmel R. Global minimum for active contour models: a minimal path approach. International Journal of Computer Vision 24 1 (1997) 57-78
8. Dabydeen D.A., Florence G.J., Paterson I., and Hamel E. A quantitative evaluation of the effects of inhibitors of tubulin assembly on polymerization induced by discodermolide, epothilone b, and paclitaxel. Cancer Chemotherapy and Pharmacology 53 (2004) 397-403
9. Danuser G., Tran P., and Salmon E. Tracking differential interference contrast diffraction line images with nanometre sensitivity. Journal of Microscopy 198 1 (1999) 34-53
10. Desai A., and Mitchison T. Microtubule polymerization dynamics. Annual Review of Cell and Developmental Biology 13 (1997) 83-117
11. Deschamps T., and Cohen L. Fast extraction of minimal paths in 3D images and applications to virtual endoscopy. Medical Image Analysis 5 (2001) 281-299
12. Deschamps T., Malladi R., and Ravve I. Fast evolution of image manifolds and application to filtering and segmentation in 3D medical images. IEEE Transactions on Visualization and Computer Graphics 10 5 (2004) 525-535
13. El-Saban, M., 2006. Automated Microtubule Tracking and Analysis, Ph.D. Thesis. University of California Santa Barbara, Electrical and Computer Engineering.
14. Genovesio A., Liedl T., Emiliani V., Parak W., Coppey-Moisan M., and Olivo-Marin J. Multiple particle tracking in 3-D+t microscopy: method and application to the tracking of endocytosed quantum dots. IEEE Transactions on Image Processing 15 5 (2006) 1062-1070
15. Geusebroek J., Smeulders A., and Geerts H. A minimum cost approach for segmenting networks of lines. International Journal of Computer Vision 43 2 (2001) 99-111
16. Ghosh R., and Webb W. Automated detection and tracking of individual and clustered cell surface low density lipoprotein receptor molecules. Biophysical Journal 66 (1994) 1301-1318
17. Hadjidemetriou, S., Duncan, J., Toomre, D., 2005. Segmentation and 3D reconstruction of microtubules in total internal reflection fluorescence microscopy (TIRFM). In: Proceedings of the 8th International Conference on Medical Image Computing and Computer Assisted Intervention.
18. Hadjidemetriou, S., Duncan, J., Toomre, D., Tuck, D., 2004. Automatic quantification of microtubule dynamics. In: Proceedings of the IEEE International Symposium on Biomedical Imaging, pp. 656-659.
19. Hadjidemetriou, S., Toomre, D., Duncan, J., 2006. Tracking the motion of the outer tips of microtubules. In: Proceedings of the IEEE International Symposium on Biomedical Imaging, pp. 530-533.
20. Helmke B., Rosen A., and Daviesyz P. Mapping mechanical strain of an endogenous cytoskeletal network in living endothelial cells. Biophysical Journal 84 (2003) 2691-2699
21. Howard J., and Hyman A. Dynamics and mechanics of the microtubule plus end. Nature 422 (2003) 753-758
22. Jackowski, M., Kao, C., Qiu, M., Constable, T., Staib, L., 2004. Estimation of anatomical connectivity by anisotropic front propagation and diffusion tensor imaging. In: Proceedings of International Conference on Medical Image Computing and Computer Assisted Intervention, pp. 663-671.
23. Jiang, M., Ji, Q., McEwen, B., 2005. Automated extraction of microtubules and their plus-ends. In: Proceedings of IEEE Workshop on Applications of Computer Vision.
24. Jiang, M., Qiang, J., McEwen, B., 2004. Enhancement of microtubules in EM tomography. In: Proceedings of IEEE International Symposium on Biomedical Imaging, pp. 1123-1126.
25. Kiyosue, Y., 2001. Tsukita cell axis project, .
26. Kodama A., Lechler T., and Fuchs E. Coordinating cytoskeletal tracks to polarize cellular movements. The Journal of Cell Biology 167 2 (2004) 203-207
27. Kofani O., Radke R., Roysam B., and Banker G. Automated semantic analysis of changes in image sequences of neurons in culture. IEEE Transactions on Biomedical Engineering 53 6 (2006) 1109-1123
28. Kong, K., Marcus, A., Giannakakou, P., Wang, M., 2007. Using particle filter to track and model microtubule dynamics. In: Proceedings of IEEE International Conference on Image Processing, vol. 5. pp. V-517-V-520.
29. Kong, K., Marcus, A., Hong, J., Giannakakou, P., Wang, M., 2005. Computer assisted analysis of microtubule dynamics in living cells. In: Proceedings of IEEE Engineering in Medicine and Biology 27th Annual Conference, pp. 3982-3985.
30. Kong, K., Marcus, A., Hong, J., Giannakakou, P., Wang, M., 2006. Ceulular imaging data analysis: mircotubule dynamics in living cell. In: Proceedings of IEEE International Conference on Image Processing, pp. 2545-2548.
31. Lichtenstein N., Geiger B., and Kam Z. Quantitative analysis of cytoskeletal organization by digital fluorescent microscopy. Cytometry Part A 54A (2003) 8-18
32. Lin, Q., 2003. Enhancement, Extraction, and Visualization of 3D Volume Data. Linkoping Studies in Science and Technology Dissertations. No. 824.
33. Lorigo, L., Faugeras, O., Grimson, W., Keriven, R., Kikinis, R., Westin, C., 1999. Co-dimension 2 geodesic active contours for MRA segmentation. In: Proceedings of the International Conference on Information Processing in Medical Imaging, vol. 1613. pp. 126-139.
34. Meijering, E., Jacob, M., Sarria, J.-C., Steiner, P., Hirling, H., Unser, M., 2004. Design and validation of a tool for neurite tracing and analysis in fluorescence microscopy images. Cytometry Part A.
35. Mennella V., Rogers G., Rogers S., Buster D., Vale R., and Sharp D. Functionally distinct kinesin-13 family members cooperate to regulate microtubule dynamics during interphase. Nature Cell Biology 7 3 (2005) 235-245
36. Ngoc, S., Laugier, F., Boulin, C., Olivo, J., 1997. Adaptive detection for tracking moving biological objects in video microscopy sequences. In: Proceedings of the International Conference on Image Processing, vol. 3. pp. 484-487.
37. Noordmans H., and Smeulders A. High accuracy tracking of 2D/3D curved line-structures by consecutive cross-section matching. Pattern Recognition Letters 19 (1998) 97-111
38. Otsu N. A threshold selection method from gray-level histograms. IEEE Transactions on Systems, Man, and Cybernetics 9 1 (1979) 62-66
39. Parker C., Wheeler-Kingshott C., and Barker G. Estimating distributed anatomical connectivity using fast marching methods and diffusion tensor imaging. IEEE Transactions on Medical Imaging 21 5 (2002) 505-512
40. Ponti A., Vallotton P., Salmon W., Waterman-Storer C.M., and Danuser G. Computational analysis of f-actin turnover in cortical actin meshworks using fluorescent speckle microscopy. Biophysical Journal 84 (2003) 3336-3352
41. Qian H., Sheetz M., and Elson E. Single particle tracking: analysis of diffusion and flow in two-dimensional systems. Journal of Biophysics 60 (1991) 910-921
42. Raisch, F., Scharr, H., Kirchgebner, N., Jahne, B., Fink, R., Uttenweiler, D., 2002. Velocity and feature estimation of actin filaments using active contours in noisy fluorescence image sequences. In: Proceedings of Conference on Visualization, Imaging, and Image Processing.
43. Saban, M., Altinok, A., Peck, A., Kenney, C., Feinstein, S., Wilson, L., Rose, K., Manjunath, B., 2006. Automated tracking and modeling of microtubule dynamics. In: Proceedings of International Symposium on Biomedical Imaging.
44. Sargin, M., Altinok, A., Kiris, E., Feinstein, S., Wilson, L., Rose, K., Manjunath, B., 2007a. Tracing microtubules in live cell images. In: Proceedings of IEEE International Symposium on Biomedical Imaging, pp. 296-299.
45. Sargin, M., Altinok, A., Rose, K., Manjunath, B., 2007b. Tracking curvilinear structures in live cell images. In: Proceedings of IEEE International Conference on Image Processing, vol. 6, pp. VI-285-VI-288.
46. Saxton M., and Jacobson K. Single particle tracking: applications to membrane dynamics. Annual Review of Biophysics and Biomolecular Structure 26 (1997) 373-399
47. Sbalzarini I., and Koumoutsakos P. Feature point tracking and trajectory analysis for video imaging in cell biology. Journal of Structural Biology 151 (2005) 182-195
48. Schmidt T., Schutz G., Baumgartner W., Gruber H., and Schindler H. Characterization of photophysics and motility of single molecules in a fluid lipid membrane. Journal of Physical Chemistry 99 (1995) 17662-17668
49. Schnapp B., Gelles J., and Sheetz M. Nanometer-scale measurements using video light microscopy. Cell Motility and the Cytoskeleton 10 (1988) 47-53
50. Schroeder W., Martin K., and Lorenzen B. The Visualization Toolkit: An Object Oriented Approach to 3D Graphics (2002), Kitware, New York
51. Sethian J., and Vladimirsky A. Ordered upwind methods for static Hamilton-Jacobi equations: theory and algorithms. SIAM Journal on Numerical Analysis 41 1 (2003) 325-363
52. Smal, I., Draegestein, K., Galjart, N., Niessen, W., Meijering, E., 2007a. Rao-Blackwellized marginal particle filtering for multiple object tracking in molecular bioimaging. In: Proceedings of Information Processing in Medical Imaging, vol. LNCS 4584, pp. 110-121.
53. Smal I., Draegestein K., Galjart N., Niessen W., and Meijering E. Particle filtering for multiple object tracking in dynamic fluorescence microscopy images: Application to microtubule growth analysis. IEEE Transactions on Medical Imaging 27 6 (2008) 789-804
54. Smal, I., Niessen, W., Meijering, E., 2006. Bayesian tracking for fluorescence microscopic imaging. In: Proceedings of IEEE International Symposium on Biomedical Imaging, pp. 550-553.
55. Smal, I., Niessen, W., Meijering, E., 2007b. Advanced particle filtering for multiple object tracking in dynamic fluorescence microscopy images. In: Proceedings of IEEE International Symposium on Biomedical Imaging, pp. 1048-1051.
56. Steger C. An unbiased detector of curvilinear structures. IEEE Transactions of Pattern Analysis and Machine Intelligence 20 (1998) 113-125
57. Stieltjes B., Kaufmann W., Zijl P., Fredericksen K., Pearlson G., Solaiyappan M., and Mori S. Diffusion tensor imaging and axonal tracking in the human brainstem. Neuroimage 14 (2001) 723-735
58. Suri J., Liu K., and Laxminarayan S. A review on MR vascular image processing: skeleton versus nonskeleton approaches: part II. IEEE Transactions on Information Technology in Biomedicine 6 4 (2002) 338-350
59. Toomre D., Keller P., White J., Olivo J., and Simons K. Dual-color visualization of trans-golgi network to plasma membrane traffic along microtubules in living cells. Journal of Cell Science 112 1 (1999) 21-33
60. Vallotton P., Gupton S., Waterman-Storer C., and Danuser G. Simultaneous mapping of filamentous actin flow and turnover in migrating cells by quantitative fluorescent speckle microscopy. PNAS 101 26 (2004) 9660-9665
61. Vallotton P., Ponti A., Waterman-Storer C., Salmon E., and Danuser G. Recovery, visualization, and analysis of actin and tubulin polymer flow in live cells: a fluorescent speckle microscopy study. Biophysical Journal 85 (2003) 1289-1306
62. Verde F., Dogterom M., Stelzer E., Karsenti E., and Leibler S. Control of microtubule dynamics and length by cyclin a- and cyclin b-dependent kinases in xenopus egg extracts. The Journal of Cell Biology 118 5 (1992) 1097-1108
63. Verde F., Labbe J., Dore M., and Karsenti E. Regulation of microtubule dynamics by cdc2 protein kinase in cell-free extracts of xenopus eggs. Nature 343 (1990) 233-238
64. Walker R., O'Brien E., Pryer N., Soboeiro M., Voter W., Erickson H., and Salmon E. Dynamic instability of individual microtubules analyzed by video light microscopy: rate constants and transition frequencies. Journal of Cell Biology 107 (1988) 1437-1448
65. Waterman-Storer C., Salmon W., and Salmon E. Feedback interactions between cell-cell adherens junctions and cytoskeletal dynamics in newt lung epithelial cells. Molecular Biology of the Cell 11 7 (2000) 2471-2483
66. Weber I., and Albrecht R. Image processing for combined bright-field and reflection interference contrast video microscopy. Computer Methods and Programs in Biomedicine 53 (1997) 113-118
67. Wink O., Niessen W., and Viergever M. Fast delineation and visualization of vessels in 3D angiographic images. IEEE Transactions on Medical Imaging 19 (2000) 337-346
68. Wittmann T., Bokoch G., and Waterman-Storer C. Regulation of leading edge microtubule and actin dynamics downstream of Rac1. The Journal of Cell Biology 161 5 (2003) 845-851
69. Work S., and Warshaw D. Computer-assisted tracking of actin filament motility. Analytical Biochemistry 202 (1992) 275-285