OSA's Digital Library

Optics Express

Optics Express

  • Editor: Andrew M. Weiner
  • Vol. 22, Iss. 8 — Apr. 21, 2014
  • pp: 9517–9527

Optically-sectioned two-shot structured illumination microscopy with Hilbert-Huang processing

Krzysztof Patorski, Maciej Trusiak, and Tomasz Tkaczyk  »View Author Affiliations


Optics Express, Vol. 22, Issue 8, pp. 9517-9527 (2014)
http://dx.doi.org/10.1364/OE.22.009517


View Full Text Article

Enhanced HTML    Acrobat PDF (1288 KB)





Browse Journals / Lookup Meetings

Browse by Journal and Year


   


Lookup Conference Papers

Close Browse Journals / Lookup Meetings

Article Tools

Share
Citations

Abstract

We introduce a fast, simple, adaptive and experimentally robust method for reconstructing background-rejected optically-sectioned images using two-shot structured illumination microscopy. Our innovative data demodulation method needs two grid-illumination images mutually phase shifted by π (half a grid period) but precise phase displacement between two frames is not required. Upon frames subtraction the input pattern with increased grid modulation is obtained. The first demodulation stage comprises two-dimensional data processing based on the empirical mode decomposition for the object spatial frequency selection (noise reduction and bias term removal). The second stage consists in calculating high contrast image using the two-dimensional spiral Hilbert transform. Our algorithm effectiveness is compared with the results calculated for the same input data using structured-illumination (SIM) and HiLo microscopy methods. The input data were collected for studying highly scattering tissue samples in reflectance mode. Results of our approach compare very favorably with SIM and HiLo techniques.

© 2014 Optical Society of America

OCIS Codes
(170.0170) Medical optics and biotechnology : Medical optics and biotechnology
(170.2520) Medical optics and biotechnology : Fluorescence microscopy
(170.3880) Medical optics and biotechnology : Medical and biological imaging
(170.6900) Medical optics and biotechnology : Three-dimensional microscopy
(110.2650) Imaging systems : Fringe analysis

ToC Category:
Microscopy

History
Original Manuscript: March 6, 2014
Revised Manuscript: April 3, 2014
Manuscript Accepted: April 3, 2014
Published: April 11, 2014

Virtual Issues
Vol. 9, Iss. 6 Virtual Journal for Biomedical Optics

Citation
Krzysztof Patorski, Maciej Trusiak, and Tomasz Tkaczyk, "Optically-sectioned two-shot structured illumination microscopy with Hilbert-Huang processing," Opt. Express 22, 9517-9527 (2014)
http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-22-8-9517


Sort:  Author  |  Year  |  Journal  |  Reset  

References

  1. J.-A. Conchello, J. W. Lichtman, “Optical sectioning microscopy,” Nat. Methods 2(12), 920–931 (2005). [CrossRef] [PubMed]
  2. J. B. Pawley, ed., Handbook of Biological Confocal Microscopy (Springer, 2006).
  3. T. S. Tkaczyk, Field Guide to Microscopy, SPIE Press (2010).
  4. P. Krizek, G. M. Hagen, “Current optical sectioning systems in fluorescence microscopy,” Formatex Microscopy Book Series No 5(2), 826–8832 (2012).
  5. T. Wilson and C. J. R. Sheppard, Theory and Practice of Scanning Optical Microscopy (Academic Press, 1984).
  6. T. Wilson, ed., Confocal Microscopy (Academic Press, 1990).
  7. M. A. A. Neil, R. Juskaitis, T. Wilson, “Method of obtaining optical sectioning by using structured light in a conventional microscope,” Opt. Lett. 22(24), 1905–1907 (1997). [CrossRef] [PubMed]
  8. L. H. Schaefer, D. Schuster, J. Schaffer, “Structured illumination microscopy: artefact analysis and reduction utilizing a parameter optimization approach,” J. Microsc. 216(2), 165–174 (2004). [CrossRef] [PubMed]
  9. K. Patorski, A. Styk, “Interferogram intensity modulation calculations using temporal phase shifting: error analysis,” Opt. Eng. 45(8), 085602 (2006). [CrossRef]
  10. T. S. Tkaczyk, M. Rahman, V. Mack, K. Sokolov, J. D. Rogers, R. Richards-Kortum, M. R. Descour, “High resolution, molecular-specific, reflectance imaging in optically dense tissue phantoms with structured-illumination,” Opt. Express 12(16), 3745–3758 (2004). [CrossRef] [PubMed]
  11. F. Chasles, B. Dubertret, A. C. Boccara, “Optimization and characterization of a structured illumination microscope,” Opt. Express 15(24), 16130–16140 (2007). [CrossRef] [PubMed]
  12. N. Bozinovic, C. Ventalon, T. Ford, J. Mertz, “Fluorescence endomicroscopy with structured illumination,” Opt. Express 16(11), 8016–8025 (2008). [CrossRef] [PubMed]
  13. K. Wicker, R. Heintzmann, “Single-shot optical sectioning using polarization-coded structured illumination,” J. Opt. 12(8), 084010 (2010). [CrossRef]
  14. H. Choi, E. Y. S. Yew, B. Hallacoglu, S. Fantini, C. J. R. Sheppard, P. T. C. So, “Improvement of axial resolution and contrast in temporally focused widefield two-photon microscopy with structured light illumination,” Biomed. Opt. Express 4(7), 995–1005 (2013). [CrossRef] [PubMed]
  15. B. Thomas, M. Momany, P. Kner, “Optical sectioning structured illumination microscopy with enhanced sensitivity,” J. Opt. 15(9), 094004 (2013). [CrossRef]
  16. D. Lim, K. K. Chu, J. Mertz, “Wide-field fluorescence sectioning with hybrid speckle and uniform-illumination microscopy,” Opt. Lett. 33(16), 1819–1821 (2008). [CrossRef] [PubMed]
  17. S. Santos, K. K. Chu, D. Lim, N. Bozinovic, T. N. Ford, C. Hourtoule, A. C. Bartoo, S. K. Singh, J. Mertz, “Optically sectioned fluorescence endomicroscopy with hybrid-illumination imaging through a flexible fiber bundle,” J. Biomed. Opt. 14(3), 030502 (2009). [CrossRef] [PubMed]
  18. J. Mertz, J. Kim, “Scanning light-sheet microscopy in the whole mouse brain with HiLo background rejection,” J. Biomed. Opt. 15(1), 016027 (2010). [CrossRef] [PubMed]
  19. E. Y. S. Yew, H. Choi, D. Kim, P. T. C. So, “Wide-field two-photon microscopy with temporal focusing and HiLo background rejection,” Proc. SPIE 7903, 79031O (2011). [CrossRef]
  20. J. Michaelson, H. Choi, P. So, H. Huang, “Depth-resolved cellular microrheology using HiLo microscopy,” Biomed. Opt. Express 3(6), 1241–1255 (2012). [CrossRef] [PubMed]
  21. J. Na, W. J. Choi, E. S. Choi, S. Y. Ryu, B. H. Lee, “Image restoration method based on Hilbert transform for full-field optical coherence tomography,” Appl. Opt. 47(3), 459–466 (2008). [CrossRef] [PubMed]
  22. M. S. Hrebesh, “Full-field and single shot full-field optical coherence tomography: a novel technique for biomedical imaging applications,” Adv. Opt. Technol. 2012, 435408 (2012).
  23. K. Patorski, M. Trusiak, “Highly contrasted Bessel fringe minima visualization for time-averaged vibration profilometry using Hilbert transform two-frame processing,” Opt. Express 21(14), 16863–16881 (2013). [CrossRef] [PubMed]
  24. K. B. Im, S. Han, H. Park, D. Kim, B.-M. Kim, “Simple high-speed confocal line-scanning microscope,” Opt. Express 13(13), 5151–5156 (2005). [CrossRef] [PubMed]
  25. K. G. Larkin, D. J. Bone, M. A. Oldfield, “Natural demodulation of two-dimensional fringe patterns. I. General background of the spiral phase quadrature transform,” J. Opt. Soc. Am. A 18(8), 1862–1870 (2001). [CrossRef] [PubMed]
  26. K. G. Larkin, D. J. Bone, M. A. Olfield, “Natural demodulation of two-dimensional fringe patterns. II. Stationary phase analysis of the spiral phase quadrature transform,” J. Opt. Soc. Am. A 18(8), 1871–1881 (2001). [CrossRef] [PubMed]
  27. M. Wielgus, K. Patorski, “Evaluation of amplitude encoded fringe patterns using the bidimensional empirical mode decomposition and the 2D Hilbert transform generalizations,” Appl. Opt. 50(28), 5513–5523 (2011). [CrossRef] [PubMed]
  28. S. M. A. Bhuiyan, R. R. Adhami, and J. F. Khan, “A novel approach of fast and adaptive bidimensional empirical mode decomposition,” in Proceedings of IEEE International Conference on Acoustic, Speech and Signal Processing (Institute of Electrical and Electronics Engineers, 2008), pp. 1313–1316. [CrossRef]
  29. S. M. A. Bhuiyan, R. R. Adhami, and J. F. Khan, “Fast and adaptive bidimensional empirical mode decomposition using order-statistics filter based envelope estimation,” EURASIP J. Adv. Signal Proc., ID728356(164), 1–18 (2008). [CrossRef]
  30. N. E. Huang, Z. Sheng, S. R. Long, M. C. Wu, W. H. Shih, Q. Zeng, N. C. Yen, C. C. Tung, H. H. Liu, “The empirical mode decomposition and the Hilbert spectrum for non-linear and non-stationary time series analysis,” Proc. R. Soc. Lond. A 454(1971), 903–995 (1998). [CrossRef]
  31. C. Damerval, S. Meignen, V. Perrier, “A fast algorithm for bidimensional EMD,” IEEE Signal Process. Lett. 12(10), 701–704 (2005). [CrossRef]
  32. C. Barber, D. Dobkins, H. Huhdanpaa, “The quickhull algorithm for convex hulls,” ACM Trans. Math. Softw. 22(4), 469–483 (1996). [CrossRef]
  33. J. C. Nunes, Y. Bouaoune, E. Delechelle, O. Niang, Ph. Bunel, “Image analysis by bidimensional empirical mode decomposition,” Image Vis. Comput. 21(12), 1019–1026 (2003). [CrossRef]
  34. M. Trusiak, M. Wielgus, K. Patorski, “Advanced processing of optical fringe patterns by automated selective reconstruction and enhanced fast empirical mode decomposition,” Opt. Lasers Eng. 52(1), 230–240 (2014). [CrossRef]
  35. K. Patorski, K. Pokorski, M. Trusiak, “Fourier domain interpretation of real and pseudo-moiré phenomena,” Opt. Express 19(27), 26065–26078 (2011). [CrossRef] [PubMed]
  36. M. Trusiak and K. Patorski, “Space domain interpetation of incoherent moiré superimpositions using FABEMD,” Proc. SPIE 8697, 18th Czech-Polish-Slovak Optical Conference on Wave and Quantum Aspects of Contemporary Optics, 869704 (December 18, 2012). [CrossRef]
  37. M. Trusiak, K. Patorski, M. Wielgus, “Adaptive enhancement of optical fringe patterns by selective reconstruction using FABEMD algorithm and Hilbert spiral transform,” Opt. Express 20(21), 23463–23479 (2012). [CrossRef] [PubMed]
  38. M. Trusiak, K. Patorski, K. Pokorski, “Hilbert-Huang processing for single-exposure two-dimensional grating interferometry,” Opt. Express 21(23), 28359–28379 (2013). [CrossRef] [PubMed]
  39. D. Karadaglić, T. Wilson, “Image formation in structured illumination wide-field fluorescence microscopy,” Micron 39(7), 808–818 (2008). [CrossRef] [PubMed]
  40. N. Hagen, L. Gao, T. S. Tkaczyk, “Quantitative sectioning and noise analysis for structured illumination microscopy,” Opt. Express 20(1), 403–413 (2012). [CrossRef] [PubMed]
  41. K. Sokolov, M. Follen, J. Aaron, I. Pavlova, A. Malpica, R. Lotan, R. Richards-Kortum, “Real time vital imaging of pre-cancer using anti-EGFR antibodies conjugated to gold nanoparticles,” Cancer Res. 63(9), 1999–2004 (2003). [PubMed]
  42. T. Wilson, “Optical sectioning in fluorescence microscopy,” J. Microsc. 242(2), 111–116 (2011). [CrossRef] [PubMed]

Cited By

Alert me when this paper is cited

OSA is able to provide readers links to articles that cite this paper by participating in CrossRef's Cited-By Linking service. CrossRef includes content from more than 3000 publishers and societies. In addition to listing OSA journal articles that cite this paper, citing articles from other participating publishers will also be listed.


« Previous Article  |  Next Article »

OSA is a member of CrossRef.

CrossCheck Deposited