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Optics Express

Optics Express

  • Editor: Michael Duncan
  • Vol. 14, Iss. 25 — Dec. 11, 2006
  • pp: 12096–12108

Three-dimensional identification of biological microorganism using integral imaging

Bahram Javidi, Inkyu Moon, and Seokwon Yeom  »View Author Affiliations


Optics Express, Vol. 14, Issue 25, pp. 12096-12108 (2006)
http://dx.doi.org/10.1364/OE.14.012096


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Abstract

In this paper, we address the identification of biological microorganisms using microscopic integral imaging (II). II senses multiview directional information of 3D objects illuminated by incoherent light. A micro-lenslet array generates a set of elemental images by projecting a 3D scene onto a detector array. In computational reconstruction of II, 3D volumetric scenes are numerically reconstructed by means of a geometrical ray projection method. The identification of the biological samples is performed using the 3D volume of the reconstructed object. In one approach, the multivariate statistical distribution of the reference sample is measured in 3D space and compared with an unknown input sample by means of statistical discriminant functions. The multivariate empirical cumulative density of the 3D volume image is determined for classification. On the other approach, the graph matching technique is applied to 3D volumetric images with Gabor feature extraction. The reference morphology is identified in unknown input samples using 3D grids. Experimental results are presented for the identification of sphacelaria alga and tribonema aequale alga. We present experimental results for both 3D and 2D imaging. To the best of our knowledge, this is the first report on 3D identification of microorganisms using II.

© 2006 Optical Society of America

OCIS Codes
(080.0080) Geometric optics : Geometric optics
(110.6880) Imaging systems : Three-dimensional image acquisition

ToC Category:
Imaging Systems

History
Original Manuscript: June 22, 2006
Revised Manuscript: October 2, 2006
Manuscript Accepted: October 12, 2006
Published: December 11, 2006

Virtual Issues
Vol. 2, Iss. 1 Virtual Journal for Biomedical Optics

Citation
Bahram Javidi, Inkyu Moon, and Seokwon Yeom, "Three-dimensional identification of biological microorganism using integral imaging," Opt. Express 14, 12096-12108 (2006)
http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-14-25-12096


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References

  1. B. Javidi, I. Moon, S. Yeom, and E. Carapezza, "Three-dimensional imaging and recognition of microorganism using single-exposure on-line (SEOL) digital holography," Opt. Express 13, 4492-4506 (2005). [CrossRef] [PubMed]
  2. B. Javidi, S. Yeom, I. Moon, and M. Daneshpanah, "Real-time automated 3D sensing, detection, and recognition of dynamic biological micro-organic events," Opt. Express 14, 3806-3829 (2006). [CrossRef] [PubMed]
  3. S. Yeom, I Moon, and B. Javidi, "Real-time 3D sensing, visualization and recognition of dynamic biological micro-organisms," Proceedings of IEEE 94, 550-566 (2006). [CrossRef]
  4. T. Kreis, ed., Handbook of holographic interferometry, (Wiley, VCH, 2005).
  5. A. Mahalanobis, R. R. Muise, S. R. Stanfill, and A. V. Nevel, "Design and application of quadratic correlation filters for target detection," IEEE Trans. Aerosp. Electron. Syst. 40, 837-850 (2004). [CrossRef]
  6. H. Kwon and N. M. Nasrabadi, "Kernel RX-algorithm: a nonlinear anomaly detector for hyperspectral imagery," IEEE Trans. Geosci. Remote Sens. 43, 388-397 (2005). [CrossRef]
  7. P. Refregier, Noise theory and application to physics, (Springer, 2003).
  8. F. Sadjadi, ed., Selected papers on automatic target recognition, (SPIE-CDROM, 1999).
  9. <bok>. B. Javidi and F. Okano eds, Three dimensional television, video, and display technologies, (Springer, Berlin, 2002).</bok>
  10. T. Okoshi, "Three-dimensional displays," Proceedings of IEEE 68, 548-564 (1980). [CrossRef]
  11. M. G. Lippmann, "Epreuves reversibles donnant la sensation du relief," J. Phys. 7, 821-825 (1908).
  12. R. Martínez-Cuenca, G. Saavedra, M. Martínez-Corral and B. Javidi, "Enhanced depth of field integral imaging with sensor resolution constraints," Opt. Express 12, 5237-5242 (2004). [CrossRef] [PubMed]
  13. J. Jang and B. Javidi, "Three-dimensional integral imaging of micro-objects," Opt. Lett. 29, 1230-1232 (2004). [CrossRef] [PubMed]
  14. H. Arimoto and B. Javidi, "Integral three-dimensional imaging with digital reconstruction", Opt. Lett. 26, 157-159 (2001). [CrossRef]
  15. S. Hong, J. Jang, and B. Javidi, "Three-dimensional volulmetric object reconstruction using computational integral imaging," Opt. Express 12, 483-491 (2004), [CrossRef] [PubMed]
  16. A. Stern and B. Javidi, "3D image sensing and reconstruction with time-division multiplexed computational integral imaging (CII)," Appl. Opt. 42, 7036-7042 (2003). [CrossRef] [PubMed]
  17. S. Kishk and B. Javidi, "Improved resolution 3D object sensing and recognition using time multiplexed computational integral imaging," Opt. Express 11, 3528-3541 (2003). [CrossRef] [PubMed]
  18. S. Yeom, B. Javidi, and E. Watson, "Photon counting passive 3D image sensing for automatic target recognition," Opt. Express 13, 9310-9330 (2005), http://www.opticsexpress.org/abstract.cfm?id=86216. [CrossRef] [PubMed]
  19. A. L. Amaral, M. da Motta, M. N. Pons, H. Vivier, N. Roche, M. Moda, and E. C. Ferreira, "Survey of protozoa and metazoa populations in wastewater treatment plants by image analysis and discriminant analysis," Environmentrics 15, 381-390 (2004). [CrossRef]
  20. S.-K. Treskatis, V. Orgeldinger, H. wolf, and E. D. Gilles, "Morphological characterization of filamentous microorganisms in submerged cultures by on-line digital image analysis and pattern recognition," Biotechnol. Bioeng. 53, 191-201 (1997). [CrossRef] [PubMed]
  21. J. M. S. Cabral, M. Mota, and J. Tramper eds., Multiphase bioreactor design: chap2 image analysis and multiphase bioreactor, (London, Taylor & Francis, 2001). [CrossRef]
  22. M. Hollander and D. A. Wolfe, Nonparametric statistical methods, (Wiley, 1999).
  23. A. C. Rencher, Methods of multivariate analysis, (Wiley, 2002). [CrossRef]
  24. J. G. Daugman, "Uncertainty relation for resolution in space, spatial frequency, and orientation optimized by two-dimensional visual cortical filters," J. Opt. Soc. Am. 2, 1160-1169 (1985). [CrossRef]
  25. T. S. Lee, "Image representation using 2D Gabor wavelets," IEEE Trans. Pattern. Anal. Mach. Intell. 18, 959-971 (1996). [CrossRef]
  26. M. Lades, J. C. Vorbruggen, J. Buhmann, J. Lange, C. v.d. Malsburg, R. P. Wurtz, and W. Konen, "Distortion invariant object recognition in the dynamic link architecture," IEEE Trans. Comput. 42, 300-311 (1993). [CrossRef]
  27. Y. Frauel, O. Matoba, E. Tajahuerce, and B. Javidi, "Comparison of passive ranging integral imaging and active imaging digital holography for 3D object recognition," Appl. Opt. 43, 452-462 (2004). [CrossRef] [PubMed]
  28. C. E. Lunneborg, Data analysis by resampling: concepts and applications, (Duxbury Press, 1999).
  29. R. C. Gonzalez and R. E. Woods, Digital imaging processing, (Prentice Hall, 2002).

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