Fully automated intensity compensation for confocal microscopic images

Journal of Microscopy

Volumn 220, Issue 1, 2005, Pages 9-19

  Wu, H X ^a   Ji, L ^a  

^a Tsinghua University   (China)

Author keywords

Confocal microscopy; Intensity compensation; Maximum entropy approach

Indexed keywords

AUTOMATION; MAXIMUM ENTROPY METHODS;

CONFOCAL MICROSCOPIC IMAGE; DECAY FUNCTION; FULLY AUTOMATED; FUNCTION METHODS; INTENSITY COMPENSATION; INTENSITY LOSS; MAXIMUM-ENTROPY APPROACHES; PARAMETER DEPENDENTS; PARAMETER-SETTING; PROFILE FITTING;

GEOMETRICAL OPTICS;

ARTICLE; CALCULATION; CONFOCAL MICROSCOPY; ENTROPY; GEOMETRY; INTENSITY DECAY FUNCTION; INTERMETHOD COMPARISON; LABORATORY AUTOMATION; MATHEMATICAL ANALYSIS; MAXIMUM ENTROPY APPROACH; OPTICS; PARAMETRIC TEST; PRIORITY JOURNAL; QUALITATIVE ANALYSIS; QUANTITATIVE ANALYSIS; SIMULATION; THREE DIMENSIONAL IMAGING; TISSUE SLICE;

EID: 27944481311     PISSN: 00222720     EISSN: 13652818     Source Type: Journal    
DOI: 10.1111/j.1365-2818.2005.01508.x     Document Type: Article

References (21)

1. Adiga, P.S.U. & Chaudhuri, B.B. (2001) Some efficient methods to correct confocal images for easy interpretation. Micron, 32, 363-370.
2. Bevensee, R.M. (1993) Maximum Entropy Solutions to Scientific Problems. Prentice Hall, Englewood Cliffs, NJ.
3. Can, A., Al-Kofahi, O., Lasek, S., Szarowski, D.H., Turner, J.N. & Roysam, B. (2003) Attenuation correction in confocal laser microscopes: a novel two-view approach. J. Microsc. 211, 67-79.
4. Conchello, J. (1995) Fluorescence photobleaching correction for expectation-maximization algorithm. SPIE Proc. 2412, 138-146.
5. Kervrann, C., Legland, D. & Pardini, L. (2004) Robust incremental compensation of the light attenuation with depth in 3D fluorescence microscopy. J. Microsc. 214, 297-314.
6. Liljeborg, A., Czader, M. & Porwit, A. (1995) A method to compensate for light attenuation with depth in three-dimensional DNA image cytometry using confocal scanning laser microscope. J. Microsc. 177, 108-114.
7. Lin, G., Adiga, U., Olson, K., Guzowski, J.F., Barnes, C.A. & Roysam, B. (2003) A hybrid 3D watershed algorithm incorporating gradient cues and object models for automatic segmentation of nuclei in confocal image stacks. Cytometry A, 56A, 23-36.
8. Margadant, F., Leemann, T. & Niederer, P. (1996) A precise light attenuation correction for confocal scanning microscopy with O(N4/3) computing time and O(N) memory requirements for N voxels. J. Microsc. 182, 121-132.
9. Markham, J. & Conchello, J. (2001) Artefacts in restored images due to intensity loss in 3D fluorescence microscopy. J. Microsc. 204, 93-98.
10. Nagelhus, T.A., Slupphaug, G., Krokan, H.E. & Lindmo, T. (1996) Fading correction for fluorescence quantitation in confocal microscopy. Cytometry, 23, 187-195.
11. Pawley, J. (ed.) (1995) Handbook of Confocal Microscopy. Plenum Press, New York.
12. Polak, E. (1997) Optimization: Algorithms and Consistent Approximations. Springer, New York.
13. Rigaut, J.P. & Vassy, J. (1991) High-resolution three-dimensional images from confocal scanning laser microscopy. Anal. Quant. Cytol. Histol. 13, 223-232.
14. Rigaut, J., Vassy, J., Hetlin, P., Duigou, F., Masson, E., Briame, D., Foucrier, J., Carvajal-Gonzales, S., Downs, A.M. & Mandard, A.-M. (1991 ) Three-dimensional DNA image cytometry by confocal scanning laser microscopy in thick tissue blocks. Cytometry, 12, 511-524.
15. Rodenacker, K., Aubele, P., Hutzler, M. & Umesh Adiga, P. (1997) Groping for quantitative digital 3-D image analysis: an approach to quantitative fluorescence in situ hybridization in thick tissue sections of prostate carcinoma. Anal. Cell. Pathol. 15, 19-29.
16. Rodenacker, K., Hausner, M., Kuehn, M., Wuertz, S. & Purkayastha, S. (2001) Depth intensity correction of biofilm volume data from confocal laser scanning microscopes. Image Anal. Stereol. 20(Suppl. 1), 556-560.
17. Roerdink, J.B.T.M. & Bakker, M. (1993) An FFT-based method for attenuation correction in fluorescence confocal microscopy. J. Microsc. 169, 3-14.
18. Strasters, K.C., Van der Voort, H.T.M., Geusebroek, J.M. & Smeulders, A.W.M. (1994) Fast attenuation correction in fluorescence confocal imaging: a recursive approach. Bioimaging, 2, 78-92.
19. Van Oostveldt, P., Verhaegen, F. & Messens, K. (1998) Heterogeneous photobleaching in confocal microscopy caused by differences in refractive index and excitation mode. Cytometry, 32, 137-146.
20. Visser, T.D., Groen, F.C.A. & Brakenhoff, G.J. (1991) Absorption and scattering correction in fluorescence confocal microscopy. J. Microsc. 163, 189-200.
21. Wang, C.-L. (2002) Three-dimensional blind deconvolution for light microscopy: fundamental studies and practical implementations. PhD thesis, Department of Electrical Engineering, Renssenlaer Polytechnic Institute, Troy, NY.