Simulated biological cells for receptor counting in fluorescence imaging

BioNanoScience

Volumn 2, Issue 2, 2012, Pages 94-103

  Ghaye, Julien ^a   De Micheli, Giovanni ^a   Carrara, Sandro ^a  

^a EPFL   (Switzerland)

Author keywords

Biological image processing; Cell simulation; Deconvolution; Fluorescence imaging; Simulator; Synthetic image

Indexed keywords

AUTOMATION; BIOINFORMATICS; CELL CULTURE; CELL PROLIFERATION; CELLS; DECONVOLUTION; FLUORESCENCE IMAGING; PROCESSING; SIMULATORS;

CELL SIMULATION; CONTROLLED ENVIRONMENT; EPIFLUORESCENCE MICROSCOPY; FLUORESCENT IMAGES; FLUORESCENT MOLECULES; IMAGE PROCESSING - METHODS; PROCESSING ALGORITHMS; SYNTHETIC IMAGES;

IMAGE PROCESSING;

CELL RECEPTOR;

ALGORITHM; ARTICLE; CELL POPULATION; DIFFRACTION; EXCITATION; FLUORESCENCE IMAGING; FLUORESCENCE MICROSCOPY; IMAGE PROCESSING; PROTEIN DENATURATION; SIGNAL NOISE RATIO; SIMULATION;

EID: 84870885357     PISSN: 21911630     EISSN: 21911649     Source Type: Journal    
DOI: 10.1007/s12668-012-0041-x     Document Type: Article

References (20)

1. Mascetti, G., Vergani, L., Diaspro, A., Carrara, S., Radicchi, G., Nicolini, C. (1996). Effect of fixatives on calf thymocytes chromatin as analyzed by 3D high-resolution fluorescence microscopy. Cytometry, 23(2), 110-119.
2. Anderson, C. M., Georgiou, G. N., Morrison, I. E., Stevenson, G. V., Cherry, R. J. (1992). Tracking of cell surface receptors by fluorescence digital imaging microscopy using a charge-coupled device camera. Low-density lipoprotein and influenza virus receptor mobility at 4 degrees C. Journal of Cell Science, 101(2), 415-425.
3. Mascetti, G., Carrara, S., Vergani, L. (2001). Relationship between chromatin compactness and dye uptake for in situ chromatin stained with DAPI. Cytometry, 44(2), 113-119.
4. Nicolini, C., Carrara, S., Mascetti, G. (1997). High order DNA structure as inferred by optical fluorimetry and scanning calorimetry. Molecular Biology Reports, 24(4), 235-246.
5. Lehmussola, A., Ruusuvuori, P., Selinummi, J., Huttunen, H., Yli-Harja, O. (2007). Computational framework for simulating fluorescence microscope images with cell populations. IEEE Transactions on Medical Imaging, 26(7), 1010-1016.
6. Lehmussola, A., Selinummi, J., Ruusuvuori, P., Niemisto, A., Yli-Harja, O. (2005). Simulating fluorescent microscope images of cell populations. In 27th annual international conference of the engineering in medicine and biology society, 2005. IEEE-EMBS 2005 (pp. 3153-3156).
7. Svoboda, D., Kašík, M., Maška, M., Hubenỳ, J., Stejskal, S., Zimmermann, M. (2007). On simulating 3D fluorescent microscope images. In Computer analysis of images and patterns (pp. 309-316).
8. Perlin, K. (1985). An image synthesizer. ACM SIGGRAPH Computer Graphics, 19(3), 287-296.
9. Yaqoob, P. (2009). The nutritional significance of lipid rafts. Annual Review of Nutrition, 29, 257-282.
10. Haeberlé, O. (2003). Focusing of light through a stratified medium: A practical approach for computing microscope point spread functions. Part I: Conventional microscopy. Optics Communications, 216(1-3), 55-63.
11. Jamur, M. C., & Oliver, C. (2010). Permeabilization of cell membranes. Methods in Molecular Biology, 588, 63-66.
12. Klein, A., van den Doel, R., Young, I. T., Ellenberger, S., van Vliet, L. (1998). Quantitative evaluation and comparison of light microscopes. In Proc. SPIE, progress in biomedical optics, optical investigation of cells in vitro and in vivo (Vol. 3260, pp. 162-173).
13. Frisken-Gibson, S., & Lanni, F. (1991). Experimental test of an analytical model of aberration in an oil-immersion objective lens used in three-dimensional light microscopy. Journal of the Optical Society of America A, 8(10), 1601-1613.
14. Mullikin, J. C., van Vliet, L. J., Netten, H., Boddeke, F. R., Van der Feltz, G., Young, I. T. (1994). Methods for CCD camera characterization. In Proceedings of the SPIE image acquisition and scientif ic imaging systems (Vol. 2173, pp 73-84).
15. Zhang, B., Zerubia, J., Olivo-Marin, J. C. (2007). Gaussian approximations of fluorescence microscope point-spread function models. Applied Optics, 46(10), 1819-1829.
16. Bigas, M., Cabruja, E., Forest, J., Salvi, J. (2006). Review of CMOS image sensors. Microelectronics Journal, 37(5), 433-451.
17. Mutch, S. A., Fujimoto, B. S., Kuyper, C. L., Kuo, J. S., Bajjalieh, S. M., Chiu, D. T. (2007) Deconvolving singlemolecule intensity distributions for quantitative microscopy measurements. Biophysical Journal, 92(8) 2926-2943.
18. Mutch, S. A., Kensel-Hammes, P., Gadd, J. C., Fujimoto, B. S., Allen, R. W., Schiro, P. G., et al. (2011). Protein quantification at the single vesicle level reveals that a subset of synaptic vesicle proteins are trafficked with high precision. The Journal of Neuroscience, 31(41), 1461-1470.
19. Cronin, B., de Wet, B., Wallace, N. I. (2009). Lucky imaging: Improved localization accuracy for single molecule imaging. Biophysical Journal, 96, 2912-2917.
20. Huang, B., Bates, M., Zhuang, Z. (2009). Super-resolution fluorescence microscopy. Annual Review of Biochemistry, 78, 993-1016.