Abstract

Traditional optical projection tomography (OPT) acquires a single image at each rotation angle, thereby suffering from limitations in CCD dynamic range; this conventional usage cannot resolve features in samples with highly heterogeneous absorption, such as in small animals with organs of varying size. We present a novel technique, applying multiple-exposure high dynamic range (HDR) imaging to OPT, and demonstrate its ability to resolve fine details in zebrafish embryos, without complicated chemical clearing. We implement the tomographic reconstruction algorithm on the GPU, yielding a performance increase of two orders of magnitude. These features give our method potential application in high-throughput, high-resolution in vivo 3D imaging.

© 2012 OSA

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  1. W. A. Kalender, “X-ray computed tomography,” Phys. Med. Biol. 51, R29–R43 (2006).
    [CrossRef] [PubMed]
  2. D. Kim, S. Park, J. H. Lee, Y. Y. Jeong, and S. Jon, “Antibiofouling polymer-coated gold nanoparticles as a contrast agent for in vivo X-ray computed tomography imaging,” J. Am. Chem. Soc. 129,7661–7665 (2007).
    [CrossRef] [PubMed]
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    [CrossRef] [PubMed]
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    [CrossRef] [PubMed]
  5. T. Alanentalo, A. Asayesh, H. Morrison, C. E. Lorén, D. Holmberg, J. Sharpe, and U. Ahlgren, “Tomographic molecular imaging and 3D quantification within adult mouse organs,” Nat. Meth. 4, 31–33 (2006).
    [CrossRef]
  6. M. J. Boot, C. H. Westerberg, J. Sanz-Ezquerro, J. Cotterell, R. Schweitzer, M. Torres, and J. Sharpe, “In vitro whole-organ imaging: 4D quantification of growing mouse limb buds,” Nat. Meth. 5, 609–612 (2008).
    [CrossRef]
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    [CrossRef] [PubMed]
  9. B. B. Kirby, N. Takada, A. J. Latimer, J. Shin, T. J. Carney, R. N. Kelsh, and B. Appel, “In vivo time-lapse imaging shows dynamic oligodendrocyte progenitor behavior during zebrafish development,” Nat. Neurosci. 9, 1506–1511 (2006).
    [CrossRef] [PubMed]
  10. Y. Gong, C. H. Mo, and S. E. Fraser, “Planar cell polarity signalling controls cell division orientation during zebrafish gastrulation,” Nature 430, 689–693 (2004).
    [CrossRef] [PubMed]
  11. B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
    [CrossRef] [PubMed]
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    [CrossRef] [PubMed]
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    [CrossRef]
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    [CrossRef] [PubMed]
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    [CrossRef] [PubMed]
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  21. E. Reinhard, G. Ward, S. Pattanaik, P. Debevec, G. Ward, and K. Myszkowski, High Dynamic Range Imaging: Acquisition, Display and Image-Based Lighting (Morgan Kaufmann, 2005).
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2011

M. Rieckher, U. J. Birk, H. Meyer, J. Ripoll, and N. Tavernarakis, “Microscopic optical projection tomography in vivo,” Plos One 6(4), e18963 (2011).
[CrossRef] [PubMed]

A. Bassi, L. Fieramonti, C. D’Andrea, M. Mione, and G. Valentini, “In vivo label-free three-dimensional imaging of zebrafish vasculature with optical projection tomography,” J. Biomed. Opt. 16, 100502 (2011).
[CrossRef] [PubMed]

J. McGinty, H. B. Taylor, L. Chen, L. Bugeon, J. R. Lamb, M. J. Dallman, and P. M. W. French, “In vivo fluorescence lifetime optical projection tomography,” Biomed. Opt. Express 2, 1340–1350 (2011).
[CrossRef] [PubMed]

2010

C. Jopling, E. Sleep, M. Raya, M. Marti, A. Raya, and J. C. I. Belmonte, “Zebrafish heart regeneration occurs by cardiomyocyte dedifferentiation and proliferation,” Nature 464, 606–609 (2010).
[CrossRef] [PubMed]

2009

D. Razansky, M. Distel, C. Vinegoni, R. Ma, N. Perrimon, R. W. Koster, and V. Ntziachristos, “Multispectral opto-acoustic tomography of deep-seated fluorescent proteins in vivo,” Nat. Photonics 3, 412–417 (2009).
[CrossRef]

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 17, 22320–22332 (2009).
[CrossRef]

2008

M. J. Boot, C. H. Westerberg, J. Sanz-Ezquerro, J. Cotterell, R. Schweitzer, M. Torres, and J. Sharpe, “In vitro whole-organ imaging: 4D quantification of growing mouse limb buds,” Nat. Meth. 5, 609–612 (2008).
[CrossRef]

C. Vinegoni, C. Pitsouli, D. Razansky, N. Perrimon, and V. Ntziachristos, “In vivo imaging of Drosophila melanogaster pupae with mesoscopic fluorescence tomography,” Nat. Methods 5, 45–47 (2008).
[CrossRef]

P. J. Lu, E. Zaccarelli, F. Ciulla, A. B. Schofield, F. Sciortino, and D. A. Weitz, “Gelation of particles with short-range attraction.” Nature 453, 499–503 (2008).
[CrossRef] [PubMed]

2007

D. Kim, S. Park, J. H. Lee, Y. Y. Jeong, and S. Jon, “Antibiofouling polymer-coated gold nanoparticles as a contrast agent for in vivo X-ray computed tomography imaging,” J. Am. Chem. Soc. 129,7661–7665 (2007).
[CrossRef] [PubMed]

A. F. Siekmann and N. D. Lawson, “Notch signalling limits angiogenic cell behaviour in developing zebrafish arteries,” Nature 445, 781–784 (2007).
[CrossRef] [PubMed]

P. J. Lu, P. A. Sims, H. Oki, J. B. Macarthur, and D. A. Weitz, “Target-locking acquisition with real-time confocal (TARC) microscopy,” Opt. Express 15, 8702–8712 (2007).
[CrossRef] [PubMed]

2006

T. Alanentalo, A. Asayesh, H. Morrison, C. E. Lorén, D. Holmberg, J. Sharpe, and U. Ahlgren, “Tomographic molecular imaging and 3D quantification within adult mouse organs,” Nat. Meth. 4, 31–33 (2006).
[CrossRef]

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

B. B. Kirby, N. Takada, A. J. Latimer, J. Shin, T. J. Carney, R. N. Kelsh, and B. Appel, “In vivo time-lapse imaging shows dynamic oligodendrocyte progenitor behavior during zebrafish development,” Nat. Neurosci. 9, 1506–1511 (2006).
[CrossRef] [PubMed]

W. A. Kalender, “X-ray computed tomography,” Phys. Med. Biol. 51, R29–R43 (2006).
[CrossRef] [PubMed]

2004

Y. Gong, C. H. Mo, and S. E. Fraser, “Planar cell polarity signalling controls cell division orientation during zebrafish gastrulation,” Nature 430, 689–693 (2004).
[CrossRef] [PubMed]

2002

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 3D microscopy and gene expression studies,” Science 296, 541–545 (2002).
[CrossRef] [PubMed]

1996

A. Momose, T. Takeda, Y. Itai, and K. Hirano, “Phase-contrast x-ray computed tomography for observing biological soft tissues,” Nat. Med. 2, 473–475 (1996).
[CrossRef] [PubMed]

Ahlgren, U.

T. Alanentalo, A. Asayesh, H. Morrison, C. E. Lorén, D. Holmberg, J. Sharpe, and U. Ahlgren, “Tomographic molecular imaging and 3D quantification within adult mouse organs,” Nat. Meth. 4, 31–33 (2006).
[CrossRef]

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 3D microscopy and gene expression studies,” Science 296, 541–545 (2002).
[CrossRef] [PubMed]

Alanentalo, T.

T. Alanentalo, A. Asayesh, H. Morrison, C. E. Lorén, D. Holmberg, J. Sharpe, and U. Ahlgren, “Tomographic molecular imaging and 3D quantification within adult mouse organs,” Nat. Meth. 4, 31–33 (2006).
[CrossRef]

Appel, B.

B. B. Kirby, N. Takada, A. J. Latimer, J. Shin, T. J. Carney, R. N. Kelsh, and B. Appel, “In vivo time-lapse imaging shows dynamic oligodendrocyte progenitor behavior during zebrafish development,” Nat. Neurosci. 9, 1506–1511 (2006).
[CrossRef] [PubMed]

Asai, J.

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

Asayesh, A.

T. Alanentalo, A. Asayesh, H. Morrison, C. E. Lorén, D. Holmberg, J. Sharpe, and U. Ahlgren, “Tomographic molecular imaging and 3D quantification within adult mouse organs,” Nat. Meth. 4, 31–33 (2006).
[CrossRef]

Baldock, R.

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 3D microscopy and gene expression studies,” Science 296, 541–545 (2002).
[CrossRef] [PubMed]

Bassi, A.

A. Bassi, L. Fieramonti, C. D’Andrea, M. Mione, and G. Valentini, “In vivo label-free three-dimensional imaging of zebrafish vasculature with optical projection tomography,” J. Biomed. Opt. 16, 100502 (2011).
[CrossRef] [PubMed]

Belmonte, J. C. I.

C. Jopling, E. Sleep, M. Raya, M. Marti, A. Raya, and J. C. I. Belmonte, “Zebrafish heart regeneration occurs by cardiomyocyte dedifferentiation and proliferation,” Nature 464, 606–609 (2010).
[CrossRef] [PubMed]

Birk, U. J.

M. Rieckher, U. J. Birk, H. Meyer, J. Ripoll, and N. Tavernarakis, “Microscopic optical projection tomography in vivo,” Plos One 6(4), e18963 (2011).
[CrossRef] [PubMed]

Bloch, C.

C. Bloch, The HDRI Handbook: High Dynamic Range Imaging for Photographers and CG Artists (Rocky Nook, 2007).

Boot, M. J.

M. J. Boot, C. H. Westerberg, J. Sanz-Ezquerro, J. Cotterell, R. Schweitzer, M. Torres, and J. Sharpe, “In vitro whole-organ imaging: 4D quantification of growing mouse limb buds,” Nat. Meth. 5, 609–612 (2008).
[CrossRef]

Bryson-Richardson, R. J.

R. J. Bryson-Richardson and P. D. Currie, “Optical projection tomography for spatio-temporal analysis in the zebrafish,” in Methods in Cell BiologyM. W. H. William Detrich and I. Z. Leonard, eds. (Academic, 2004), pp. 37–50.

Bugeon, L.

Carney, T. J.

B. B. Kirby, N. Takada, A. J. Latimer, J. Shin, T. J. Carney, R. N. Kelsh, and B. Appel, “In vivo time-lapse imaging shows dynamic oligodendrocyte progenitor behavior during zebrafish development,” Nat. Neurosci. 9, 1506–1511 (2006).
[CrossRef] [PubMed]

Chen, L.

Chien, C. B.

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

Ciulla, F.

P. J. Lu, E. Zaccarelli, F. Ciulla, A. B. Schofield, F. Sciortino, and D. A. Weitz, “Gelation of particles with short-range attraction.” Nature 453, 499–503 (2008).
[CrossRef] [PubMed]

Cotterell, J.

M. J. Boot, C. H. Westerberg, J. Sanz-Ezquerro, J. Cotterell, R. Schweitzer, M. Torres, and J. Sharpe, “In vitro whole-organ imaging: 4D quantification of growing mouse limb buds,” Nat. Meth. 5, 609–612 (2008).
[CrossRef]

Currie, P. D.

R. J. Bryson-Richardson and P. D. Currie, “Optical projection tomography for spatio-temporal analysis in the zebrafish,” in Methods in Cell BiologyM. W. H. William Detrich and I. Z. Leonard, eds. (Academic, 2004), pp. 37–50.

D’Andrea, C.

A. Bassi, L. Fieramonti, C. D’Andrea, M. Mione, and G. Valentini, “In vivo label-free three-dimensional imaging of zebrafish vasculature with optical projection tomography,” J. Biomed. Opt. 16, 100502 (2011).
[CrossRef] [PubMed]

Dallman, M. J.

Davidson, D.

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 3D microscopy and gene expression studies,” Science 296, 541–545 (2002).
[CrossRef] [PubMed]

Debevec, P.

E. Reinhard, G. Ward, S. Pattanaik, P. Debevec, G. Ward, and K. Myszkowski, High Dynamic Range Imaging: Acquisition, Display and Image-Based Lighting (Morgan Kaufmann, 2005).

Distel, M.

D. Razansky, M. Distel, C. Vinegoni, R. Ma, N. Perrimon, R. W. Koster, and V. Ntziachristos, “Multispectral opto-acoustic tomography of deep-seated fluorescent proteins in vivo,” Nat. Photonics 3, 412–417 (2009).
[CrossRef]

Feruglio, P. F.

Fexon, L.

Fieramonti, L.

A. Bassi, L. Fieramonti, C. D’Andrea, M. Mione, and G. Valentini, “In vivo label-free three-dimensional imaging of zebrafish vasculature with optical projection tomography,” J. Biomed. Opt. 16, 100502 (2011).
[CrossRef] [PubMed]

Figueiredo, J. L.

Fraser, S. E.

Y. Gong, C. H. Mo, and S. E. Fraser, “Planar cell polarity signalling controls cell division orientation during zebrafish gastrulation,” Nature 430, 689–693 (2004).
[CrossRef] [PubMed]

French, P. M. W.

Gong, Y.

Y. Gong, C. H. Mo, and S. E. Fraser, “Planar cell polarity signalling controls cell division orientation during zebrafish gastrulation,” Nature 430, 689–693 (2004).
[CrossRef] [PubMed]

Hecksher-Sorensen, J.

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 3D microscopy and gene expression studies,” Science 296, 541–545 (2002).
[CrossRef] [PubMed]

Hill, B.

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 3D microscopy and gene expression studies,” Science 296, 541–545 (2002).
[CrossRef] [PubMed]

Hirano, K.

A. Momose, T. Takeda, Y. Itai, and K. Hirano, “Phase-contrast x-ray computed tomography for observing biological soft tissues,” Nat. Med. 2, 473–475 (1996).
[CrossRef] [PubMed]

Holmberg, D.

T. Alanentalo, A. Asayesh, H. Morrison, C. E. Lorén, D. Holmberg, J. Sharpe, and U. Ahlgren, “Tomographic molecular imaging and 3D quantification within adult mouse organs,” Nat. Meth. 4, 31–33 (2006).
[CrossRef]

Ii, M.

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

Itai, Y.

A. Momose, T. Takeda, Y. Itai, and K. Hirano, “Phase-contrast x-ray computed tomography for observing biological soft tissues,” Nat. Med. 2, 473–475 (1996).
[CrossRef] [PubMed]

Jeong, Y. Y.

D. Kim, S. Park, J. H. Lee, Y. Y. Jeong, and S. Jon, “Antibiofouling polymer-coated gold nanoparticles as a contrast agent for in vivo X-ray computed tomography imaging,” J. Am. Chem. Soc. 129,7661–7665 (2007).
[CrossRef] [PubMed]

Jon, S.

D. Kim, S. Park, J. H. Lee, Y. Y. Jeong, and S. Jon, “Antibiofouling polymer-coated gold nanoparticles as a contrast agent for in vivo X-ray computed tomography imaging,” J. Am. Chem. Soc. 129,7661–7665 (2007).
[CrossRef] [PubMed]

Jopling, C.

C. Jopling, E. Sleep, M. Raya, M. Marti, A. Raya, and J. C. I. Belmonte, “Zebrafish heart regeneration occurs by cardiomyocyte dedifferentiation and proliferation,” Nature 464, 606–609 (2010).
[CrossRef] [PubMed]

Kalender, W. A.

W. A. Kalender, “X-ray computed tomography,” Phys. Med. Biol. 51, R29–R43 (2006).
[CrossRef] [PubMed]

Kelsh, R. N.

B. B. Kirby, N. Takada, A. J. Latimer, J. Shin, T. J. Carney, R. N. Kelsh, and B. Appel, “In vivo time-lapse imaging shows dynamic oligodendrocyte progenitor behavior during zebrafish development,” Nat. Neurosci. 9, 1506–1511 (2006).
[CrossRef] [PubMed]

Kim, D.

D. Kim, S. Park, J. H. Lee, Y. Y. Jeong, and S. Jon, “Antibiofouling polymer-coated gold nanoparticles as a contrast agent for in vivo X-ray computed tomography imaging,” J. Am. Chem. Soc. 129,7661–7665 (2007).
[CrossRef] [PubMed]

Kirby, B. B.

B. B. Kirby, N. Takada, A. J. Latimer, J. Shin, T. J. Carney, R. N. Kelsh, and B. Appel, “In vivo time-lapse imaging shows dynamic oligodendrocyte progenitor behavior during zebrafish development,” Nat. Neurosci. 9, 1506–1511 (2006).
[CrossRef] [PubMed]

Kock, G. A. H.

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

Koster, R. W.

D. Razansky, M. Distel, C. Vinegoni, R. Ma, N. Perrimon, R. W. Koster, and V. Ntziachristos, “Multispectral opto-acoustic tomography of deep-seated fluorescent proteins in vivo,” Nat. Photonics 3, 412–417 (2009).
[CrossRef]

Lamb, J. R.

Larrieu-Lahargue, F.

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

Latimer, A. J.

B. B. Kirby, N. Takada, A. J. Latimer, J. Shin, T. J. Carney, R. N. Kelsh, and B. Appel, “In vivo time-lapse imaging shows dynamic oligodendrocyte progenitor behavior during zebrafish development,” Nat. Neurosci. 9, 1506–1511 (2006).
[CrossRef] [PubMed]

Lawson, N. D.

A. F. Siekmann and N. D. Lawson, “Notch signalling limits angiogenic cell behaviour in developing zebrafish arteries,” Nature 445, 781–784 (2007).
[CrossRef] [PubMed]

Lee, J. H.

D. Kim, S. Park, J. H. Lee, Y. Y. Jeong, and S. Jon, “Antibiofouling polymer-coated gold nanoparticles as a contrast agent for in vivo X-ray computed tomography imaging,” J. Am. Chem. Soc. 129,7661–7665 (2007).
[CrossRef] [PubMed]

Li, D. Y.

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

Lorén, C. E.

T. Alanentalo, A. Asayesh, H. Morrison, C. E. Lorén, D. Holmberg, J. Sharpe, and U. Ahlgren, “Tomographic molecular imaging and 3D quantification within adult mouse organs,” Nat. Meth. 4, 31–33 (2006).
[CrossRef]

Losordo, D. W.

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

Lu, P. J.

P. J. Lu, E. Zaccarelli, F. Ciulla, A. B. Schofield, F. Sciortino, and D. A. Weitz, “Gelation of particles with short-range attraction.” Nature 453, 499–503 (2008).
[CrossRef] [PubMed]

P. J. Lu, P. A. Sims, H. Oki, J. B. Macarthur, and D. A. Weitz, “Target-locking acquisition with real-time confocal (TARC) microscopy,” Opt. Express 15, 8702–8712 (2007).
[CrossRef] [PubMed]

Ma, R.

D. Razansky, M. Distel, C. Vinegoni, R. Ma, N. Perrimon, R. W. Koster, and V. Ntziachristos, “Multispectral opto-acoustic tomography of deep-seated fluorescent proteins in vivo,” Nat. Photonics 3, 412–417 (2009).
[CrossRef]

Macarthur, J. B.

Marti, M.

C. Jopling, E. Sleep, M. Raya, M. Marti, A. Raya, and J. C. I. Belmonte, “Zebrafish heart regeneration occurs by cardiomyocyte dedifferentiation and proliferation,” Nature 464, 606–609 (2010).
[CrossRef] [PubMed]

McGinty, J.

Meyer, H.

M. Rieckher, U. J. Birk, H. Meyer, J. Ripoll, and N. Tavernarakis, “Microscopic optical projection tomography in vivo,” Plos One 6(4), e18963 (2011).
[CrossRef] [PubMed]

Mione, M.

A. Bassi, L. Fieramonti, C. D’Andrea, M. Mione, and G. Valentini, “In vivo label-free three-dimensional imaging of zebrafish vasculature with optical projection tomography,” J. Biomed. Opt. 16, 100502 (2011).
[CrossRef] [PubMed]

Mo, C. H.

Y. Gong, C. H. Mo, and S. E. Fraser, “Planar cell polarity signalling controls cell division orientation during zebrafish gastrulation,” Nature 430, 689–693 (2004).
[CrossRef] [PubMed]

Momose, A.

A. Momose, T. Takeda, Y. Itai, and K. Hirano, “Phase-contrast x-ray computed tomography for observing biological soft tissues,” Nat. Med. 2, 473–475 (1996).
[CrossRef] [PubMed]

Morrison, H.

T. Alanentalo, A. Asayesh, H. Morrison, C. E. Lorén, D. Holmberg, J. Sharpe, and U. Ahlgren, “Tomographic molecular imaging and 3D quantification within adult mouse organs,” Nat. Meth. 4, 31–33 (2006).
[CrossRef]

Myszkowski, K.

E. Reinhard, G. Ward, S. Pattanaik, P. Debevec, G. Ward, and K. Myszkowski, High Dynamic Range Imaging: Acquisition, Display and Image-Based Lighting (Morgan Kaufmann, 2005).

Nahrendorf, M.

Ntziachristos, V.

D. Razansky, M. Distel, C. Vinegoni, R. Ma, N. Perrimon, R. W. Koster, and V. Ntziachristos, “Multispectral opto-acoustic tomography of deep-seated fluorescent proteins in vivo,” Nat. Photonics 3, 412–417 (2009).
[CrossRef]

C. Vinegoni, C. Pitsouli, D. Razansky, N. Perrimon, and V. Ntziachristos, “In vivo imaging of Drosophila melanogaster pupae with mesoscopic fluorescence tomography,” Nat. Methods 5, 45–47 (2008).
[CrossRef]

Oki, H.

Park, K. W.

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

Park, S.

D. Kim, S. Park, J. H. Lee, Y. Y. Jeong, and S. Jon, “Antibiofouling polymer-coated gold nanoparticles as a contrast agent for in vivo X-ray computed tomography imaging,” J. Am. Chem. Soc. 129,7661–7665 (2007).
[CrossRef] [PubMed]

Pattanaik, S.

E. Reinhard, G. Ward, S. Pattanaik, P. Debevec, G. Ward, and K. Myszkowski, High Dynamic Range Imaging: Acquisition, Display and Image-Based Lighting (Morgan Kaufmann, 2005).

Perrimon, N.

D. Razansky, M. Distel, C. Vinegoni, R. Ma, N. Perrimon, R. W. Koster, and V. Ntziachristos, “Multispectral opto-acoustic tomography of deep-seated fluorescent proteins in vivo,” Nat. Photonics 3, 412–417 (2009).
[CrossRef]

C. Vinegoni, C. Pitsouli, D. Razansky, N. Perrimon, and V. Ntziachristos, “In vivo imaging of Drosophila melanogaster pupae with mesoscopic fluorescence tomography,” Nat. Methods 5, 45–47 (2008).
[CrossRef]

Perry, P.

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 3D microscopy and gene expression studies,” Science 296, 541–545 (2002).
[CrossRef] [PubMed]

Pitsouli, C.

C. Vinegoni, C. Pitsouli, D. Razansky, N. Perrimon, and V. Ntziachristos, “In vivo imaging of Drosophila melanogaster pupae with mesoscopic fluorescence tomography,” Nat. Methods 5, 45–47 (2008).
[CrossRef]

Pivovarov, M.

Pozzo, A.

Raya, A.

C. Jopling, E. Sleep, M. Raya, M. Marti, A. Raya, and J. C. I. Belmonte, “Zebrafish heart regeneration occurs by cardiomyocyte dedifferentiation and proliferation,” Nature 464, 606–609 (2010).
[CrossRef] [PubMed]

Raya, M.

C. Jopling, E. Sleep, M. Raya, M. Marti, A. Raya, and J. C. I. Belmonte, “Zebrafish heart regeneration occurs by cardiomyocyte dedifferentiation and proliferation,” Nature 464, 606–609 (2010).
[CrossRef] [PubMed]

Razansky, D.

D. Razansky, M. Distel, C. Vinegoni, R. Ma, N. Perrimon, R. W. Koster, and V. Ntziachristos, “Multispectral opto-acoustic tomography of deep-seated fluorescent proteins in vivo,” Nat. Photonics 3, 412–417 (2009).
[CrossRef]

C. Vinegoni, C. Pitsouli, D. Razansky, N. Perrimon, and V. Ntziachristos, “In vivo imaging of Drosophila melanogaster pupae with mesoscopic fluorescence tomography,” Nat. Methods 5, 45–47 (2008).
[CrossRef]

Reinhard, E.

E. Reinhard, G. Ward, S. Pattanaik, P. Debevec, G. Ward, and K. Myszkowski, High Dynamic Range Imaging: Acquisition, Display and Image-Based Lighting (Morgan Kaufmann, 2005).

Rieckher, M.

M. Rieckher, U. J. Birk, H. Meyer, J. Ripoll, and N. Tavernarakis, “Microscopic optical projection tomography in vivo,” Plos One 6(4), e18963 (2011).
[CrossRef] [PubMed]

Ripoll, J.

M. Rieckher, U. J. Birk, H. Meyer, J. Ripoll, and N. Tavernarakis, “Microscopic optical projection tomography in vivo,” Plos One 6(4), e18963 (2011).
[CrossRef] [PubMed]

Ross, A.

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 3D microscopy and gene expression studies,” Science 296, 541–545 (2002).
[CrossRef] [PubMed]

Sanz-Ezquerro, J.

M. J. Boot, C. H. Westerberg, J. Sanz-Ezquerro, J. Cotterell, R. Schweitzer, M. Torres, and J. Sharpe, “In vitro whole-organ imaging: 4D quantification of growing mouse limb buds,” Nat. Meth. 5, 609–612 (2008).
[CrossRef]

Sbarbati, A.

Schofield, A. B.

P. J. Lu, E. Zaccarelli, F. Ciulla, A. B. Schofield, F. Sciortino, and D. A. Weitz, “Gelation of particles with short-range attraction.” Nature 453, 499–503 (2008).
[CrossRef] [PubMed]

Schweitzer, R.

M. J. Boot, C. H. Westerberg, J. Sanz-Ezquerro, J. Cotterell, R. Schweitzer, M. Torres, and J. Sharpe, “In vitro whole-organ imaging: 4D quantification of growing mouse limb buds,” Nat. Meth. 5, 609–612 (2008).
[CrossRef]

Sciortino, F.

P. J. Lu, E. Zaccarelli, F. Ciulla, A. B. Schofield, F. Sciortino, and D. A. Weitz, “Gelation of particles with short-range attraction.” Nature 453, 499–503 (2008).
[CrossRef] [PubMed]

Sharpe, J.

M. J. Boot, C. H. Westerberg, J. Sanz-Ezquerro, J. Cotterell, R. Schweitzer, M. Torres, and J. Sharpe, “In vitro whole-organ imaging: 4D quantification of growing mouse limb buds,” Nat. Meth. 5, 609–612 (2008).
[CrossRef]

T. Alanentalo, A. Asayesh, H. Morrison, C. E. Lorén, D. Holmberg, J. Sharpe, and U. Ahlgren, “Tomographic molecular imaging and 3D quantification within adult mouse organs,” Nat. Meth. 4, 31–33 (2006).
[CrossRef]

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 3D microscopy and gene expression studies,” Science 296, 541–545 (2002).
[CrossRef] [PubMed]

Shin, J.

B. B. Kirby, N. Takada, A. J. Latimer, J. Shin, T. J. Carney, R. N. Kelsh, and B. Appel, “In vivo time-lapse imaging shows dynamic oligodendrocyte progenitor behavior during zebrafish development,” Nat. Neurosci. 9, 1506–1511 (2006).
[CrossRef] [PubMed]

Siekmann, A. F.

A. F. Siekmann and N. D. Lawson, “Notch signalling limits angiogenic cell behaviour in developing zebrafish arteries,” Nature 445, 781–784 (2007).
[CrossRef] [PubMed]

Silver, M.

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

Sims, P. A.

Sleep, E.

C. Jopling, E. Sleep, M. Raya, M. Marti, A. Raya, and J. C. I. Belmonte, “Zebrafish heart regeneration occurs by cardiomyocyte dedifferentiation and proliferation,” Nature 464, 606–609 (2010).
[CrossRef] [PubMed]

Sorensen, L. K.

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

Suh, W.

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

Suli, A.

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

Takada, N.

B. B. Kirby, N. Takada, A. J. Latimer, J. Shin, T. J. Carney, R. N. Kelsh, and B. Appel, “In vivo time-lapse imaging shows dynamic oligodendrocyte progenitor behavior during zebrafish development,” Nat. Neurosci. 9, 1506–1511 (2006).
[CrossRef] [PubMed]

Takeda, T.

A. Momose, T. Takeda, Y. Itai, and K. Hirano, “Phase-contrast x-ray computed tomography for observing biological soft tissues,” Nat. Med. 2, 473–475 (1996).
[CrossRef] [PubMed]

Tavernarakis, N.

M. Rieckher, U. J. Birk, H. Meyer, J. Ripoll, and N. Tavernarakis, “Microscopic optical projection tomography in vivo,” Plos One 6(4), e18963 (2011).
[CrossRef] [PubMed]

Taylor, H. B.

Thomas, K. R.

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

Thorne, T.

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

Torres, M.

M. J. Boot, C. H. Westerberg, J. Sanz-Ezquerro, J. Cotterell, R. Schweitzer, M. Torres, and J. Sharpe, “In vitro whole-organ imaging: 4D quantification of growing mouse limb buds,” Nat. Meth. 5, 609–612 (2008).
[CrossRef]

Urness, L. D.

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

Valentini, G.

A. Bassi, L. Fieramonti, C. D’Andrea, M. Mione, and G. Valentini, “In vivo label-free three-dimensional imaging of zebrafish vasculature with optical projection tomography,” J. Biomed. Opt. 16, 100502 (2011).
[CrossRef] [PubMed]

Vinegoni, C.

D. Razansky, M. Distel, C. Vinegoni, R. Ma, N. Perrimon, R. W. Koster, and V. Ntziachristos, “Multispectral opto-acoustic tomography of deep-seated fluorescent proteins in vivo,” Nat. Photonics 3, 412–417 (2009).
[CrossRef]

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 17, 22320–22332 (2009).
[CrossRef]

C. Vinegoni, C. Pitsouli, D. Razansky, N. Perrimon, and V. Ntziachristos, “In vivo imaging of Drosophila melanogaster pupae with mesoscopic fluorescence tomography,” Nat. Methods 5, 45–47 (2008).
[CrossRef]

Ward, G.

E. Reinhard, G. Ward, S. Pattanaik, P. Debevec, G. Ward, and K. Myszkowski, High Dynamic Range Imaging: Acquisition, Display and Image-Based Lighting (Morgan Kaufmann, 2005).

E. Reinhard, G. Ward, S. Pattanaik, P. Debevec, G. Ward, and K. Myszkowski, High Dynamic Range Imaging: Acquisition, Display and Image-Based Lighting (Morgan Kaufmann, 2005).

Weissleder, R.

Weitz, D. A.

P. J. Lu, E. Zaccarelli, F. Ciulla, A. B. Schofield, F. Sciortino, and D. A. Weitz, “Gelation of particles with short-range attraction.” Nature 453, 499–503 (2008).
[CrossRef] [PubMed]

P. J. Lu, P. A. Sims, H. Oki, J. B. Macarthur, and D. A. Weitz, “Target-locking acquisition with real-time confocal (TARC) microscopy,” Opt. Express 15, 8702–8712 (2007).
[CrossRef] [PubMed]

Westerberg, C. H.

M. J. Boot, C. H. Westerberg, J. Sanz-Ezquerro, J. Cotterell, R. Schweitzer, M. Torres, and J. Sharpe, “In vitro whole-organ imaging: 4D quantification of growing mouse limb buds,” Nat. Meth. 5, 609–612 (2008).
[CrossRef]

Wilson, B. D.

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

Zaccarelli, E.

P. J. Lu, E. Zaccarelli, F. Ciulla, A. B. Schofield, F. Sciortino, and D. A. Weitz, “Gelation of particles with short-range attraction.” Nature 453, 499–503 (2008).
[CrossRef] [PubMed]

Biomed. Opt. Express

J. Am. Chem. Soc.

D. Kim, S. Park, J. H. Lee, Y. Y. Jeong, and S. Jon, “Antibiofouling polymer-coated gold nanoparticles as a contrast agent for in vivo X-ray computed tomography imaging,” J. Am. Chem. Soc. 129,7661–7665 (2007).
[CrossRef] [PubMed]

J. Biomed. Opt.

A. Bassi, L. Fieramonti, C. D’Andrea, M. Mione, and G. Valentini, “In vivo label-free three-dimensional imaging of zebrafish vasculature with optical projection tomography,” J. Biomed. Opt. 16, 100502 (2011).
[CrossRef] [PubMed]

Nat. Med.

A. Momose, T. Takeda, Y. Itai, and K. Hirano, “Phase-contrast x-ray computed tomography for observing biological soft tissues,” Nat. Med. 2, 473–475 (1996).
[CrossRef] [PubMed]

Nat. Meth.

T. Alanentalo, A. Asayesh, H. Morrison, C. E. Lorén, D. Holmberg, J. Sharpe, and U. Ahlgren, “Tomographic molecular imaging and 3D quantification within adult mouse organs,” Nat. Meth. 4, 31–33 (2006).
[CrossRef]

M. J. Boot, C. H. Westerberg, J. Sanz-Ezquerro, J. Cotterell, R. Schweitzer, M. Torres, and J. Sharpe, “In vitro whole-organ imaging: 4D quantification of growing mouse limb buds,” Nat. Meth. 5, 609–612 (2008).
[CrossRef]

Nat. Methods

C. Vinegoni, C. Pitsouli, D. Razansky, N. Perrimon, and V. Ntziachristos, “In vivo imaging of Drosophila melanogaster pupae with mesoscopic fluorescence tomography,” Nat. Methods 5, 45–47 (2008).
[CrossRef]

Nat. Neurosci.

B. B. Kirby, N. Takada, A. J. Latimer, J. Shin, T. J. Carney, R. N. Kelsh, and B. Appel, “In vivo time-lapse imaging shows dynamic oligodendrocyte progenitor behavior during zebrafish development,” Nat. Neurosci. 9, 1506–1511 (2006).
[CrossRef] [PubMed]

Nat. Photonics

D. Razansky, M. Distel, C. Vinegoni, R. Ma, N. Perrimon, R. W. Koster, and V. Ntziachristos, “Multispectral opto-acoustic tomography of deep-seated fluorescent proteins in vivo,” Nat. Photonics 3, 412–417 (2009).
[CrossRef]

Nature

Y. Gong, C. H. Mo, and S. E. Fraser, “Planar cell polarity signalling controls cell division orientation during zebrafish gastrulation,” Nature 430, 689–693 (2004).
[CrossRef] [PubMed]

A. F. Siekmann and N. D. Lawson, “Notch signalling limits angiogenic cell behaviour in developing zebrafish arteries,” Nature 445, 781–784 (2007).
[CrossRef] [PubMed]

C. Jopling, E. Sleep, M. Raya, M. Marti, A. Raya, and J. C. I. Belmonte, “Zebrafish heart regeneration occurs by cardiomyocyte dedifferentiation and proliferation,” Nature 464, 606–609 (2010).
[CrossRef] [PubMed]

P. J. Lu, E. Zaccarelli, F. Ciulla, A. B. Schofield, F. Sciortino, and D. A. Weitz, “Gelation of particles with short-range attraction.” Nature 453, 499–503 (2008).
[CrossRef] [PubMed]

Opt. Express

Phys. Med. Biol.

W. A. Kalender, “X-ray computed tomography,” Phys. Med. Biol. 51, R29–R43 (2006).
[CrossRef] [PubMed]

Plos One

M. Rieckher, U. J. Birk, H. Meyer, J. Ripoll, and N. Tavernarakis, “Microscopic optical projection tomography in vivo,” Plos One 6(4), e18963 (2011).
[CrossRef] [PubMed]

Science

B. D. Wilson, M. Ii, K. W. Park, A. Suli, L. K. Sorensen, F. Larrieu-Lahargue, L. D. Urness, W. Suh, J. Asai, G. A. H. Kock, T. Thorne, M. Silver, K. R. Thomas, C. B. Chien, D. W. Losordo, and D. Y. Li, “Netrins promote developmental and therapeutic angiogenesis,” Science 313, 640–644 (2006).
[CrossRef] [PubMed]

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 3D microscopy and gene expression studies,” Science 296, 541–545 (2002).
[CrossRef] [PubMed]

Other

R. J. Bryson-Richardson and P. D. Currie, “Optical projection tomography for spatio-temporal analysis in the zebrafish,” in Methods in Cell BiologyM. W. H. William Detrich and I. Z. Leonard, eds. (Academic, 2004), pp. 37–50.

E. Reinhard, G. Ward, S. Pattanaik, P. Debevec, G. Ward, and K. Myszkowski, High Dynamic Range Imaging: Acquisition, Display and Image-Based Lighting (Morgan Kaufmann, 2005).

C. Bloch, The HDRI Handbook: High Dynamic Range Imaging for Photographers and CG Artists (Rocky Nook, 2007).

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