Unwarping confocal microscopy images of bee brains by nonrigid registration to a magnetic resonance microscopy image

Journal of Biomedical Optics

Volumn 10, Issue 2, 2005, Pages

  Rohlfing, Torsten ^a   Schaupp, Frank ^b   Haddad, Daniel ^c   Brandt, Robert ^d   Haase, Axel ^c   Menzel, Randolf ^b   Maurer Jr , Calvin R ^e  

^a SRI INTERNATIONAL   (United States)

^b FREIE UNIVERSITÄT BERLIN   (Germany)

^c UNIVERSITY OF WÜRZBURG   (Germany)

^d Mercury Computer Systems   (Germany)

^e STANFORD UNIVERSITY   (United States)

Author keywords

Confocal microscopy imaging; Geometrical distortion; Magnetic resonance microscopy; Nonrigid image registration

Indexed keywords

ANIMAL; ARTICLE; BEE; BRAIN; CONFOCAL MICROSCOPY; HISTOLOGY; IMAGE PROCESSING; METHODOLOGY; NUCLEAR MAGNETIC RESONANCE IMAGING;

ANIMALS; BEES; BRAIN; IMAGE PROCESSING, COMPUTER-ASSISTED; MAGNETIC RESONANCE IMAGING; MICROSCOPY, CONFOCAL;

DATA ACQUISITION; IMAGE PROCESSING; MAGNETIC RESONANCE IMAGING; MATHEMATICAL MODELS; MATHEMATICAL TRANSFORMATIONS; MEDICAL IMAGING; OPTICAL MICROSCOPY; OPTIMIZATION; REFRACTIVE INDEX; SPECTROMETERS;

BEES; CONFOCAL MICROSCOPY IMAGING; GEOMETRICAL DISTORTION; IMAGE ACQUISITION; LASER SCANNING MICROSCOPY; MAGNETIC RESONANCE MICROSCOPY; NONRIGID IMAGE REGISTRATION;

BRAIN;

APINAE; APIS MELLIFERA; APOIDEA;

EID: 24744458223     PISSN: 10833668     EISSN: 15602281     Source Type: Journal    
DOI: 10.1117/1.1896025     Document Type: Article

References (30)

1. Multidimensional Microscopy, P. C. Cheng, T. H. Lin, W. L. Wu, and J. L. Wu, Eds., Springer-Verlag, New York (1994).
2. Three-Dimensional Confocal Microscopy: Volume Investigation of Biological Specimens, J. K. Stevens, L. R. Mills, and J. E. Trogadis, Eds., Academic Press, London (1994).
3. P. V. Belichenko and A. Dahlstrom, "Confocal laser scanning microscopy and 3-D reconstructions of neuronal structures in human brain cortex", Neuroimage 2(3), 201-207 (1995).
4. E. C. Marin, G. S. X. E. Jefferis, T. Komiyama, H. Zhu, and L. Luo, "Representation of the glomerular olfactory map in the Drosophila brain", Cell 109(2), 243-255 (2002). (Pubitemid 34518262)
5. S. G. Megason and S. E. Fraser, "Digitizing life at the level of the cell: high-performance laser-scanning microscopy and image analysis for in toto imaging of development", Mech. Dev. 120(11), 1407-1420 (2003). (Pubitemid 37421171)
6. R. L. Van Metter, J. Beutel, and H. L. Kundel, Handbook of Medical Imaging, Volume 1, Physics and Psychophysics, SPIE Press, Bellingham, WA (2000).
7. H. Benveniste and S. Blackband, "MR microscopy and high resolution small animal MRI: applications in neuroscience research", Prog. Neurobiol. 67(5), 393-420 (2002). (Pubitemid 35257912)
8. K. A. Hinds, J. M. Hill, E. M. Shapiro, M. O. Laukkanen, A. C. Silva, C. A. Combs, T. R. Varney, R. S. Balaban, A. P. Koretsky, and C. E. Dunbar, "Highly efficient endosomal labeling of progenitor and stem cells with large magnetic particles allows magnetic resonance imaging of single cells", Blood 102(3), 867-872 (2003). (Pubitemid 36917777)
9. A. C. Wright, S. L. Wehrli, G. Zhang, M. Takahashi, M. E. Hackney, D. B. Selzer, and F. W. Wehrli, "Visualization of individual axons in excised lamprey spinal cord by magnetic resonance microscopy", J. Neurosci. Methods 114(1), 9-15 (2002). (Pubitemid 34163243)
10. S. C. Grant, D. L. Buckley, S. Gibbs, A. G. Webb, and S. J. Blackband, "MR microscopy of multicomponent diffusion in single neurons", Magn. Reson. Med. 46(6), 1107-1112 (2001). (Pubitemid 33104299)
11. A. Y. Louie, M. M. Hüber, E. T. Ahrens, U. Rothbacher, R. Moats, R. E. Jacobs, S. E. Fraser, and T. J. Meade, "In vivo visualization of gene expression using magnetic resonance imaging", Nat. Biotechnol. 18(3), 321-325 (2000). (Pubitemid 30159486)
12. S. Wecker, T. Hornschemeyer, and M. Hoehn, "Investigation of insect morphology by MRI: assessment of spatial and temporal resolution", J. Magn. Reson. 20(1), 105-111 (2002). (Pubitemid 34309137)
13. A. Jasanoff and P. Z. Sun, "In vivo magnetic resonance microscopy of brain structure in unanesthetized flies", J. Magn. Reson. 158(1-2), 79-85 (2002).
14. D. Haddad, F. Schaupp, R. Brandt, G. Manz, R. Menzel, and A. Haase, "NMR imaging of the honeybee brain", J. Insect Sci. 4, (2004). Available online: www.insectscience.org/4.7
15. B. R. E. Klagges, G. Heimbeck, T. A. Godenschwege, A. Hofbauer, G. O. Pflugfelder, R. Reifegerste, D. Reisch, M. Schaupp, S. Buchner, and E. Buchner, "Invertebrate synapsins: a single gene codes for several isoforms in Drosophila", J. Neurosci. 16, 3154-3165 (1996). (Pubitemid 26142351)
16. C. Reichmuth, S. Becker, M. Benz, D. Reisch, G. Heimbeck, A. Hofbauer, B. R. E. Klagges, G. O. Pflugfelder, and E. Buchner, "The sap47 gene of Drosophila melanogaster codes for a novel conserved neuronal protein associated with synaptic terminals", Brain Res. Mol. Brain Res. 32, 45-54 (1995).
17. W. Zuschratter, T. Steffen, K. Braun, A. Herzog, B. Michaelis, and H. Scheich, "Acquisition of multiple image stacks with a confocal laser scanning microscope", Proc. SPIE 3261, 177-186 (1998). (Pubitemid 35003865)
18. D. Bucher, M. Scholz, M. Stetter, K. Obermayer, and H. J. Pflüger, "Correction methods for three-dimensional reconstructions from confocal images: I. tissue shrinking and axial scaling", J. Neurosci. Methods 100, 135-143 (2000).
19. F. Schaupp, "In-situ imaging of the bee brain with NMR microscopy", Master's Thesis, Freie Universitat Berlin, Berlin, Germany (2001).
20. D. L. G. Hill, P. G. Batchelor, M. Holden, and D. J. Hawkes, "Medical image registration", Phys. Med. Biol. 46, R1-R45 (2001). (Pubitemid 32218849)
21. C. Studholme, D. L. G. Hill, and D. J. Hawkes, "Automated three-dimensional registration of magnetic resonance and positron emission tomography brain images by multiresolution optimization of voxel similarity measures", Med. Phys. 24(1), 25-35 (1997). (Pubitemid 27051930)
22. C. Studholme, D. L. G. Hill, and D. J. Hawkes, "An overlap invariant entropy measure of 3D medical image alignment", Pattern Recogn. 32(1), 71-86 (1999).
23. D. Rueckert, L. I. Sonoda, C. Hayes, D. L. G. Hill, M. O. Leach, and D. J. Hawkes, "Nonrigid registration using free-form deformations: Application to breast MR images", IEEE Trans. Med. Imaging 18(8), 712-721 (1999). (Pubitemid 32262025)
24. T. Rohlfing and C. R. Maurer, Jr., "Nonrigid image registration in shared-memory multiprocessor environments with application to brains, breasts, and bees", IEEE Trans. Inf. Technol. Biomed. 7(1), 16-25 (2003).
25. G. Wahba, Spline Models for Observational Data, vol. 59, CBMS-NSF Regional Conf. Series, Society for Industrial and Applied Mathematics, Philadelphia, PA (1990).
26. D. Rueckert, "Nonrigid registration: Concepts, algorithms, and applications", in Medical Image Registration, J. V. Hajnal, D. L. G. Hill, and D. J. Hawkes, Eds., pp. 281-301, CRC Press, Boca Raton, FL (2001).
27. S. K. Warfield, A. Guimond, A. Roche, A. Bharata, A. Tei, A. Talos, J. Rexilius, J. Ruiz-Alzola, C.-F. Westin, S. Haker, S. Angenent, A. Tannenbaum, F. A. Jolesz, and R. Kikinis, "Advanced nonrigid registration algorithms for image fusion", in Brain Mapping: The Methods, 2nd ed., A. W. Toga and J. C. Mazziotta, Eds., pp. 661-690, Academic Press, San Diego (2002).
28. T. Rohlfing, C. R. Maurer, Jr., D. A. Bluemke, and M. A. Jacobs, "Volume-preserving nonrigid registration of MR breast images using free-form deformation with an incompressibility constraint", IEEE Trans. Med. Imaging 22(6), 730-741 (2003).
29. T. Rohlfing, R. Brandt, R. Menzel, and C. R. Maurer, Jr., "Evaluation of atlas selection strategies for atlas-based image segmentation with application to confocal microscopy images of bee brains", Neuroimage 21(4), 1428-1442 (2004). (Pubitemid 38446569)
30. T. Rohlfing, R. Brandt, C. R. Maurer, Jr., and R. Menzel, "Bee brains, B-splines and computational democracy: Generating an average shape atlas", in IEEE Workshop on Mathematical Methods in Biomedical Image Analysis, L. Staib, Ed., pp. 187-194, IEEE Computer Society, Los Alamitos, CA (2001). (Pubitemid 34086193)