Automated recovery of the center of rotation in optical projection tomography in the presence of scattering

IEEE Journal of Biomedical and Health Informatics

Volumn 17, Issue 1, 2013, Pages 198-204

  Dong, Di ^a   Zhu, Shouping ^b   Qin, Chenghu ^a   Kumar, Varsha ^c   Stein, Jens V ^c   Oehler, Stephan ^d   Savakis, Charalambos ^d   Tian, Jie ^a   Ripoll, Jorge ^e  

^a INSTITUTE OF AUTOMATION   (China)

^b XIDIAN UNIVERSITY   (China)

^c UNIVERSITY OF BERN   (Switzerland)

^d BIOMEDICAL SCIENCES RESEARCH CENTER ALEXANDER FLEMING   (Greece)

^e INSTITUTE OF ELECTRONIC STRUCTURE AND LASER   (Greece)

Author keywords

Center of rotation; Optical projection tomography (OPT); Parallel reconstruction; Scattering

Indexed keywords

COMPUTER GRAPHICS; GRAPHICS PROCESSING UNIT; IMAGE RECONSTRUCTION; OPTICAL PROJECTORS; PARALLEL PROGRAMMING; PROGRAM PROCESSORS; ROTATION; SCATTERING; SIGNAL TO NOISE RATIO;

3D RECONSTRUCTION; CENTER OF ROTATION; DROSOPHILA MELANOGASTER; HIGH INTENSITY; HIGH SIGNAL-TO-NOISE RATIO; OPTICAL PROJECTION TOMOGRAPHY; PARALLEL RECONSTRUCTION; TWO-STEP SEARCH;

COMPUTERIZED TOMOGRAPHY;

ANATOMY AND HISTOLOGY; ANIMAL; DEVICES; DROSOPHILA MELANOGASTER; IMAGE PROCESSING; IMAGE QUALITY; INSECT; LYMPH NODE; MOUSE; OPTICAL TOMOGRAPHY; PROCEDURES; RADIATION SCATTERING; ROTATION; ARTICLE; EQUIPMENT; HISTOLOGY; METHODOLOGY;

ANIMALS; DROSOPHILA MELANOGASTER; IMAGE PROCESSING, COMPUTER-ASSISTED; LYMPH NODES; MICE; PHANTOMS, IMAGING; PUPA; ROTATION; SCATTERING, RADIATION; TOMOGRAPHY, OPTICAL;

EID: 84885100722     PISSN: 21682194     EISSN: None     Source Type: Journal    
DOI: 10.1109/TITB.2012.2219588     Document Type: Article

References (33)

1. J. Sharpe, U. Ahlgren, P. Perry, B. Hill, A. Ross, J. Hecksher-Sorensen, R. Baldock, and D. Davidson, "Optical projection tomography as a tool for microscopy and gene expression studies," Science, vol. 296, no. 5567, pp. 541-545, 2002.
2. J. Sharpe, "Optical projection tomography," Annu. Rev. Biomed. Eng., vol. 6, pp. 209-228, 2004.
3. J. R. Walls, J. G. Sled, J. Sharpe, and R. M. Henkelman, "Resolution improvement in emission optical projection tomography," Phys. Med. Biol., vol. 52, no. 10, pp. 2775-2790, 2007.
4. F. Vasefi, E. Ng, B. Kaminska, G. H. Chapman, K. Jordan, and J. J. L. Carson, "Transmission and fluorescence angular domain optical projection tomography of turbid media," Appl. Opt., vol. 48, no. 33, pp. 6448-6457, Nov. 2009.
5. J. McGinty, K. B. Tahir, R. Laine, C. B. Talbot, C. Dunsby, M. A. Neil, L. Quintana, J. Swoger, J. Sharpe, and P. M. French, "Fluorescence lifetime optical projection tomography," J. Biophoton., vol. 1, no. 5, pp. 390-394, 2008.
6. C. Vinegoni, D. Razansky, J.-L. Figueiredo, M. Nahrendorf, V. Ntziachristos, and R. Weissleder, "Normalized born ratio for fluorescence optical projection tomography," Opt. Lett., vol. 34, no. 3, pp. 319-321, Feb. 2009.
7. R.-a. Lorbeer, M. Heidrich, C. Lorbeer, D. Fernando, R. Ojeda, G. Bicker, H. Meyer, and A. Heisterkamp, "Highly efficient 3D fluorescence microscopy with a scanning laser optical tomograph," Opt. Express, vol. 19, no. 6, pp. 412-417, 2011.
8. J. Ripoll, H. Meyer, and A. Garofalakis, "In vivo optical tomography: From diffusion to ballistic," Opt. Mater., vol. 31, no. 7, pp. 1082-1085, 2009.
9. R. J. Bryson-Richardson and P. D. Currie, "Optical projection tomography for spatio-temporal analysis in the zebrafish," Method. Cell Biol., vol. 76, pp. 37-50, Jan. 2004.
10. J.-F. Colas and J. Sharpe, "Live optical projection tomography," Organogenesis, vol. 5, no. 4, pp. 211-216, Oct. 2009.
11. J. Kerwin, M. Scott, J. Sharpe, L. Puelles, S. C. Robson, M. Martínez-de-la Torre, J. L. Ferran, G. Feng, R. Baldock, T. Strachan, D. Davidson, and S. Lindsay, "3 dimensional modelling of early human brain development using optical projection tomography," BMC Neurosci., vol. 5, p. 27, 2004. Available: http://dx.doi.org/10.1186/1471-2202-5-27
12. M. Rieckher, U. J. Birk, H. Meyer, J. Ripoll, and N. Tavernarakis, "Microscopic optical projection tomography In Vivo," PLoS ONE, vol. 6, no. 4, p. e18963, Apr. 2011. Available: http://dx.doi.org/10.1186/1471-2202-5- 27.
13. H. Meyer, A. Darrell, A. Metaxakis, C. Savakis, and J. Ripoll, "Optical projection tomography for in-vivo imaging of drosophila melanogaster," Microsc. Anal., vol. 22, pp. 19-22, 2008.
14. J. R. Walls, J. G. Sled, J. Sharpe, and R. M. Henkelman, "Correction of artefacts in optical projection tomography," Phys. Med. Biol., vol. 50, no. 19, pp. 4645-4665, 2005. (Pubitemid 41361523)
15. P. F. Feruglio, C. Vinegoni, J. Gros, A. Sbarbati, and R. Weissleder, "Block matching 3D random noise filtering for absorption optical projection tomography," Phys. Med. Biol., vol. 55, no. 18, pp. 5401-15, Sep. 2010.
16. A. Darrell, H. Meyer, K. Marias, M. Brady, and J. Ripoll, "Weighted filtered backprojection for quantitative fluorescence optical projection tomography," Phys. Med. Biol., vol. 53, no. 14, pp. 3863-3881, Jul. 2008. (Pubitemid 352020271)
17. E. Betzig, G. H. Patterson, R. Sougrat, O. W. Lindwasser, S. Olenych, J. S. Bonifacino, M. W. Davidson, J. Lippincott-Schwartz, and H. F. Hess, "Imaging intracellular fluorescent proteins at nanometer resolution," Science, vol. 313, no. 5793, pp. 1642-1645, 2006. (Pubitemid 44414039)
18. U. J. Birk, M. Rieckher, N. Konstantinides, A. Darrell, A. Sarasa-Renedo, H. Meyer, N. Tavernarakis, and J. Ripoll, "Correction for specimen movement and rotation errors for in-vivo optical projection tomography," Biomed. Opt. Express, vol. 1, no. 1, pp. 87-96, Aug. 2010.
19. A. Cheddad, C. Svensson, J. Sharpe, F. Georgsson, and U. Ahlgren, "Image processing assisted algorithms for optical projection tomography," IEEE Trans. Med. Imag., vol. 31, no. 1, pp. 1-15, Jan. 2012.
20. S. Zhu, D. Dong, U. Birk, M. Rieckher, N. Tavernarakis, X. Qu, J. Liang, J. Tian, and J. Ripoll, "Automated motion correction for in vivo optical projection tomography," IEEE Trans. Med. Imag., vol. 31, no. 7, pp. 1358-1371, Jul. 2012.
21. S. Azevedo, D. Schneberk, J. Fitch, and H. Martz, "Calculation of the rotational centers in computed tomography sinograms," IEEE Trans. Nucl. Sci., vol. 37, no. 4, pp. 1525-1540, Aug. 1990. (Pubitemid 20726341)
22. Y. Wang and R. Wang, "Imaging using parallel integrals in optical projection tomography," Phys. Med. Biol., vol. 51, no. 23, pp. 6023-6032, 2006. (Pubitemid 46217646)
23. Y. Wang and R. K. Wang, "Optimization of image-forming optics for transmission optical projection tomography," Appl. Opt., vol. 46, no. 27, pp. 6815-6820, Sep. 2007. (Pubitemid 350240444)
24. 3logN) backprojection algorithm for the 3D Radon transform," IEEE Trans. Med. Imag., vol. 21, no. 2, pp. 76-88, Feb. 2002.
25. C. Vinegoni, L. Fexon, P. F. Feruglio, M. Pivovarov, J.-L. Figueiredo, M. Nahrendorf, A. Pozzo, A. Sbarbati, and R. Weissleder, "High throughput transmission optical projection tomography using low cost graphics processing unit," Opt. Express, vol. 17, no. 25, pp. 22 320-22 332, Dec. 2009.
26. D. Dong, J. Tian, Y. Dai, G. Yan, F. Yang, and P. wu, "Unified reconstruction framework for multi-modal medical imaging," J. X-Ray Sci. Technol., vol. 19, pp. 111-126, 2011.
27. U. J. Birk, A. Darrell, N. Konstantinides, A. Sarasa-Renedo, and J. Ripoll, "Improved reconstructions and generalized filtered back projection for optical projection tomography," Appl. Opt., vol. 50, no. 4, pp. 392-398, Feb. 2011.
28. M. Koukidou, A. Klinakis, C. Reboulakis, L. Zagoraiou, N. Tavernarakis, I. Livadaras, A. Economopoulos, and C. Savakis, "Germ line transformation of the olive fly bactrocera oleae using a versatile transgenesis marker," Insect Mol. Biol., vol. 15, no. 1, pp. 95-103, 2006.
29. M. Slaney and A. Kak, Principles of Computerized Tomographic Imaging. Philadelphia, PA: SIAM, 1988.
30. S. Bainbridge and M. Bownes, "Staging the metamorphosis of drosophila melanogaster," J. Embryol. Exp. Morphol., vol. 66, no. 1, pp. 57-80, 1981.
31. V. Kumar, E. Scandella, R. Danuser, L. Onder, M. Nitschk, Y. Fukui, C. Halin, B. Ludewig, and J. V. Stein, "Global lymphoid tissue remodeling during a viral infection is orchestrated by a B cell Clymphotoxin-dependent pathway," Blood, vol. 115, no. 23, pp. 4725-4733, 2010.
32. Y. Kyriakou, R. M. Lapp, L. Hillebrand, D. Ertel, and W. A. Kalender, "Simultaneous misalignment correction for approximate circular cone-beam computed tomography," Phys. Med. Biol., vol. 53, no. 22, pp. 6267-6289, 2008.
33. A. Kingston, A. Sakellariou, T. Varslot, G. Myers, and A. Sheppard, "Reliable automatic alignment of tomographic projection data by passive auto-focus," Med. Phys., vol. 38, no. 9, pp. 4934-4945, 2011.