Abstract

The study analyzes noise in X-ray in-line phase tomography in a biomedical context. The impact of noise on detection of iron oxide nanoparticles in mouse brain is assessed. The part of the noise due to the imaging system and the part due to biology are quantitatively expressed in a Neyman Pearson detection strategy with two models of noise. This represents a practical extension of previous work on noise in phase-contrast X-ray imaging which focused on the theoretical expression of the signal-to-noise ratio in mono-dimensional phantoms, taking account of the statistical noise of the imaging system only. We also report the impact of the phase retrieval step on detection performance. Taken together, this constitutes a general methodology of practical interest for quantitative extraction of information from X-ray in-line phase tomography, and is also relevant to assessment of contrast agents with a blob-like signature in high resolution imaging.

© 2013 OSA

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    [CrossRef]
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    [CrossRef] [PubMed]
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    [CrossRef] [PubMed]
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    [CrossRef] [PubMed]
  21. D. M. Paganin, S. C. Mayo, T. E. Gureyev, P. R. Miller, and S. W. Wilkins, “Simultaneous phase and amplitude extraction from a single defocused image of a homogeneous object,” J. Microsc.206, 33–40 (2002).
    [CrossRef] [PubMed]
  22. M. Salome, F. Peyrin, P. Cloetens, C. Odet, A. M. Laval-Jeantet, J. Baruchel, and P. Spanne, “A synchrotron radiation microtomography system for the analysis of trabecular bone samples,” Med. Phys.26, 2194–2204 (1999).
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    [CrossRef]
  24. M. Langer, P. Cloetens, and F. Peyrin, “Regularization of phase retrieval with phase attenuation duality for 3D holotomography,” IEEE Trans. Image Process.19, 2428–2436 (2010).
    [CrossRef] [PubMed]
  25. R. J. Dejus and M. Sanchez del Rio, “Xop: A graphical user interface for spectral calculations and X-ray optics utilities,” Rev. Sci. Instrum.67, 3356 (1996).
    [CrossRef]
  26. M. A. Beltran, D. M. Paganin, K. Uesugi, and M. J. Kitchen, “2D and 3D X-ray phase retrieval of multi-material objects using a single defocus distance,” Opt. Express18, 6423–6436 (2010).
    [CrossRef] [PubMed]
  27. T. Weitkamp, D. Haas, D. Wegrzynek, and A. Rack, “ANKAphase: Software for single-distance phase retrieval from inline X-ray phase-contrast radiographs,” J. Synchrotron Radiat.18, 617–629 (2011).
    [CrossRef] [PubMed]
  28. R. C. Chen, H. L. Xie, L. Rigon, R. Longo, E. Castelli, and T. Q. Xiao, “Phase retrieval in quantitative x-ray microtomography with a single sample-to-detector distance,” Opt. Lett.36, 1719–1721, (2011).
    [CrossRef] [PubMed]

2013 (2)

A. Bravin, P. Coan, and P. Suortti, “X-ray phase-contrast imaging: From pre-clinical applications towards clinics,” Phys. Med. Biol.58, R1–35 (2013).
[CrossRef]

M. Marinescu, M. Langer, A. Durand, C. Olivier, A. Chabrol, H. Rositi, F. Chauveau, T. Cho, N. Nighoghossian, Y. Berthezene, F. Peyrin, and M. Wiart, “Synchrotron radiation micro-computed tomography as a new method to detect iron oxide nanoparticles in the brain,” Mol. Imaging Biol.15, 552–559 (2013).
[CrossRef] [PubMed]

2012 (2)

2011 (4)

R. C. Chen, H. L. Xie, L. Rigon, R. Longo, E. Castelli, and T. Q. Xiao, “Phase retrieval in quantitative x-ray microtomography with a single sample-to-detector distance,” Opt. Lett.36, 1719–1721, (2011).
[CrossRef] [PubMed]

T. Weitkamp, D. Haas, D. Wegrzynek, and A. Rack, “ANKAphase: Software for single-distance phase retrieval from inline X-ray phase-contrast radiographs,” J. Synchrotron Radiat.18, 617–629 (2011).
[CrossRef] [PubMed]

C.-Y. Chou and M. A. Anastasio, “Noise texture and signal detectability in propagation based x-ray phase-contrast tomography,” Med. Phys.37, 270–291 (2011).
[CrossRef]

C.-Y. Chou and P.-Y. Huang, “Image reconstruction in phase-contrast tomography exploiting the second-order statistical properties of the projection data,” Opt. Express10, 24396–24410 (2011).
[CrossRef]

2010 (4)

S. Titarenko, V. Titarenko, A. Kyrieleis, and P. J. Withers, “A priori information in a regularized sinogram-based method for removing ring artefacts in tomography,” J. Synchrotron Radiat.17, 540–549 (2010).
[CrossRef] [PubMed]

M. Langer, P. Cloetens, and F. Peyrin, “Regularization of phase retrieval with phase attenuation duality for 3D holotomography,” IEEE Trans. Image Process.19, 2428–2436 (2010).
[CrossRef] [PubMed]

F. Chauveau, S. Moucharrafie, M. Wiart, J.-C. Brisset, Y. Berthezene, and N. Nighoghossian, “In vivo MRI assessment of permanent middle cerebral artery occlusion by electrocoagulation: Pitfalls of procedure,” Exp. Transl. Stroke Med.2, 4–8 (2010).
[CrossRef] [PubMed]

M. A. Beltran, D. M. Paganin, K. Uesugi, and M. J. Kitchen, “2D and 3D X-ray phase retrieval of multi-material objects using a single defocus distance,” Opt. Express18, 6423–6436 (2010).
[CrossRef] [PubMed]

2009 (2)

C.-Y. Chou and M. A. Anastasio, “Influence of imaging geometry on noise texture in quantitative in-line X-ray phase-contrast imaging,” Opt. Express.17, 14466–14480 (2009).
[CrossRef] [PubMed]

V. Desestret, J.-C. Brisset, E. Devillard, S. Moucharrafie, S. Nataf, J. Honnorat, N. Nighoghossian, Y. Berthezène, and M. Wiart, “Early stage investigations of USPIO-induced signal changes after local cerebral ischemia in mice,” Stroke40, 1834–1841 (2009).
[CrossRef] [PubMed]

2008 (2)

2006 (1)

2005 (2)

Y. I. Nesterets, S. W. Wilkins, T. E. Gureyev, A. Pogany, and A. W. Stevenson, “On the optimization of experimental parameters for X-ray in-line phase-contrast imaging,” Rev. Sci. Instrum.76, 093706 (2005).
[CrossRef]

M. J. Kitchen, D. M. Paganin, R. A. Lewis, N. Yagi, and K. Uesugi, “Analysis of speckle patterns in phase-contrast images of lung tissue,” Nucl. Instrum. Methods Phys. Res., Sect. A548, 240–246 (2005).
[CrossRef]

2002 (1)

D. M. Paganin, S. C. Mayo, T. E. Gureyev, P. R. Miller, and S. W. Wilkins, “Simultaneous phase and amplitude extraction from a single defocused image of a homogeneous object,” J. Microsc.206, 33–40 (2002).
[CrossRef] [PubMed]

1999 (1)

M. Salome, F. Peyrin, P. Cloetens, C. Odet, A. M. Laval-Jeantet, J. Baruchel, and P. Spanne, “A synchrotron radiation microtomography system for the analysis of trabecular bone samples,” Med. Phys.26, 2194–2204 (1999).
[CrossRef] [PubMed]

1998 (1)

C. Raven, “Numerical removal of ring artifacts in microtomography,” Rev. Sci. Instrum.69, 2978–2980 (1998).
[CrossRef]

1996 (1)

R. J. Dejus and M. Sanchez del Rio, “Xop: A graphical user interface for spectral calculations and X-ray optics utilities,” Rev. Sci. Instrum.67, 3356 (1996).
[CrossRef]

1993 (1)

T. Lindeberg, “Detecting salient blob-like image structures and their scales with a scale space primal sketch: a method for focus-of attention,” Int. J. Comput. Vision11, 283–318 (1993).
[CrossRef]

Anastasio, M. A.

C.-Y. Chou and M. A. Anastasio, “Noise texture and signal detectability in propagation based x-ray phase-contrast tomography,” Med. Phys.37, 270–291 (2011).
[CrossRef]

C.-Y. Chou and M. A. Anastasio, “Influence of imaging geometry on noise texture in quantitative in-line X-ray phase-contrast imaging,” Opt. Express.17, 14466–14480 (2009).
[CrossRef] [PubMed]

Baruchel, J.

M. Salome, F. Peyrin, P. Cloetens, C. Odet, A. M. Laval-Jeantet, J. Baruchel, and P. Spanne, “A synchrotron radiation microtomography system for the analysis of trabecular bone samples,” Med. Phys.26, 2194–2204 (1999).
[CrossRef] [PubMed]

Beltran, M. A.

Berthezene, Y.

M. Marinescu, M. Langer, A. Durand, C. Olivier, A. Chabrol, H. Rositi, F. Chauveau, T. Cho, N. Nighoghossian, Y. Berthezene, F. Peyrin, and M. Wiart, “Synchrotron radiation micro-computed tomography as a new method to detect iron oxide nanoparticles in the brain,” Mol. Imaging Biol.15, 552–559 (2013).
[CrossRef] [PubMed]

F. Chauveau, S. Moucharrafie, M. Wiart, J.-C. Brisset, Y. Berthezene, and N. Nighoghossian, “In vivo MRI assessment of permanent middle cerebral artery occlusion by electrocoagulation: Pitfalls of procedure,” Exp. Transl. Stroke Med.2, 4–8 (2010).
[CrossRef] [PubMed]

Berthezène, Y.

V. Desestret, J.-C. Brisset, E. Devillard, S. Moucharrafie, S. Nataf, J. Honnorat, N. Nighoghossian, Y. Berthezène, and M. Wiart, “Early stage investigations of USPIO-induced signal changes after local cerebral ischemia in mice,” Stroke40, 1834–1841 (2009).
[CrossRef] [PubMed]

Boin, M.

Boistel, R.

M. Langer, R. Boistel, E. Pagot, P. Cloetens, and F. Peyrin, “X-ray in-line phase microtomography for biomedical applications,” in Microscopy: Science, Technology, Applications and Education, Microscopy Book Series, A. Méndez-Vilas and J. Díaz, eds. (Formatex, 2010), pp. 391–402.

Bravin, A.

Brisset, J.-C.

F. Chauveau, S. Moucharrafie, M. Wiart, J.-C. Brisset, Y. Berthezene, and N. Nighoghossian, “In vivo MRI assessment of permanent middle cerebral artery occlusion by electrocoagulation: Pitfalls of procedure,” Exp. Transl. Stroke Med.2, 4–8 (2010).
[CrossRef] [PubMed]

V. Desestret, J.-C. Brisset, E. Devillard, S. Moucharrafie, S. Nataf, J. Honnorat, N. Nighoghossian, Y. Berthezène, and M. Wiart, “Early stage investigations of USPIO-induced signal changes after local cerebral ischemia in mice,” Stroke40, 1834–1841 (2009).
[CrossRef] [PubMed]

Bulte, J. W.

J. W. Bulte and M. M. Modo, Nanoparticles in Biomedical Imaging (Springer, 2007).

Castelli, E.

Chabrol, A.

M. Marinescu, M. Langer, A. Durand, C. Olivier, A. Chabrol, H. Rositi, F. Chauveau, T. Cho, N. Nighoghossian, Y. Berthezene, F. Peyrin, and M. Wiart, “Synchrotron radiation micro-computed tomography as a new method to detect iron oxide nanoparticles in the brain,” Mol. Imaging Biol.15, 552–559 (2013).
[CrossRef] [PubMed]

Chauveau, F.

M. Marinescu, M. Langer, A. Durand, C. Olivier, A. Chabrol, H. Rositi, F. Chauveau, T. Cho, N. Nighoghossian, Y. Berthezene, F. Peyrin, and M. Wiart, “Synchrotron radiation micro-computed tomography as a new method to detect iron oxide nanoparticles in the brain,” Mol. Imaging Biol.15, 552–559 (2013).
[CrossRef] [PubMed]

F. Chauveau, S. Moucharrafie, M. Wiart, J.-C. Brisset, Y. Berthezene, and N. Nighoghossian, “In vivo MRI assessment of permanent middle cerebral artery occlusion by electrocoagulation: Pitfalls of procedure,” Exp. Transl. Stroke Med.2, 4–8 (2010).
[CrossRef] [PubMed]

Chen, R. C.

Cho, T.

M. Marinescu, M. Langer, A. Durand, C. Olivier, A. Chabrol, H. Rositi, F. Chauveau, T. Cho, N. Nighoghossian, Y. Berthezene, F. Peyrin, and M. Wiart, “Synchrotron radiation micro-computed tomography as a new method to detect iron oxide nanoparticles in the brain,” Mol. Imaging Biol.15, 552–559 (2013).
[CrossRef] [PubMed]

Chou, C.-Y.

C.-Y. Chou and M. A. Anastasio, “Noise texture and signal detectability in propagation based x-ray phase-contrast tomography,” Med. Phys.37, 270–291 (2011).
[CrossRef]

C.-Y. Chou and P.-Y. Huang, “Image reconstruction in phase-contrast tomography exploiting the second-order statistical properties of the projection data,” Opt. Express10, 24396–24410 (2011).
[CrossRef]

C.-Y. Chou and M. A. Anastasio, “Influence of imaging geometry on noise texture in quantitative in-line X-ray phase-contrast imaging,” Opt. Express.17, 14466–14480 (2009).
[CrossRef] [PubMed]

Cloetens, P.

M. Langer, P. Cloetens, and F. Peyrin, “Regularization of phase retrieval with phase attenuation duality for 3D holotomography,” IEEE Trans. Image Process.19, 2428–2436 (2010).
[CrossRef] [PubMed]

M. Langer, P. Cloetens, J.-P. Guigay, and F. Peyrin, “Quantitative comparison of direct phase retrieval algorithms in in-line phase tomography,” Med. Phys.35, 4556–4566 (2008).
[CrossRef] [PubMed]

M. Salome, F. Peyrin, P. Cloetens, C. Odet, A. M. Laval-Jeantet, J. Baruchel, and P. Spanne, “A synchrotron radiation microtomography system for the analysis of trabecular bone samples,” Med. Phys.26, 2194–2204 (1999).
[CrossRef] [PubMed]

M. Langer, R. Boistel, E. Pagot, P. Cloetens, and F. Peyrin, “X-ray in-line phase microtomography for biomedical applications,” in Microscopy: Science, Technology, Applications and Education, Microscopy Book Series, A. Méndez-Vilas and J. Díaz, eds. (Formatex, 2010), pp. 391–402.

Coan, P.

Dejus, R. J.

R. J. Dejus and M. Sanchez del Rio, “Xop: A graphical user interface for spectral calculations and X-ray optics utilities,” Rev. Sci. Instrum.67, 3356 (1996).
[CrossRef]

Desestret, V.

V. Desestret, J.-C. Brisset, E. Devillard, S. Moucharrafie, S. Nataf, J. Honnorat, N. Nighoghossian, Y. Berthezène, and M. Wiart, “Early stage investigations of USPIO-induced signal changes after local cerebral ischemia in mice,” Stroke40, 1834–1841 (2009).
[CrossRef] [PubMed]

Devillard, E.

V. Desestret, J.-C. Brisset, E. Devillard, S. Moucharrafie, S. Nataf, J. Honnorat, N. Nighoghossian, Y. Berthezène, and M. Wiart, “Early stage investigations of USPIO-induced signal changes after local cerebral ischemia in mice,” Stroke40, 1834–1841 (2009).
[CrossRef] [PubMed]

Diemoz, P. C.

Durand, A.

M. Marinescu, M. Langer, A. Durand, C. Olivier, A. Chabrol, H. Rositi, F. Chauveau, T. Cho, N. Nighoghossian, Y. Berthezene, F. Peyrin, and M. Wiart, “Synchrotron radiation micro-computed tomography as a new method to detect iron oxide nanoparticles in the brain,” Mol. Imaging Biol.15, 552–559 (2013).
[CrossRef] [PubMed]

Goudail, F.

F. Goudail and P. Réfrégier, Statistical Image Processing Techniques for Noisy Images: An Application-Oriented Approach (Kluwer Academic, 2004).

Guigay, J.-P.

M. Langer, P. Cloetens, J.-P. Guigay, and F. Peyrin, “Quantitative comparison of direct phase retrieval algorithms in in-line phase tomography,” Med. Phys.35, 4556–4566 (2008).
[CrossRef] [PubMed]

Gureyev, T. E.

T. E. Gureyev, Y. I. Nesterets, A. W. Stevenson, P. R. Miller, A. Pogany, and S. W. Wilkins, “Some simple rules for contrast, signal-to-noise and resolution in in-line X-ray phase-contrast imaging,” Opt. Express16, 3223–3241 (2008).
[CrossRef] [PubMed]

Y. I. Nesterets, S. W. Wilkins, T. E. Gureyev, A. Pogany, and A. W. Stevenson, “On the optimization of experimental parameters for X-ray in-line phase-contrast imaging,” Rev. Sci. Instrum.76, 093706 (2005).
[CrossRef]

D. M. Paganin, S. C. Mayo, T. E. Gureyev, P. R. Miller, and S. W. Wilkins, “Simultaneous phase and amplitude extraction from a single defocused image of a homogeneous object,” J. Microsc.206, 33–40 (2002).
[CrossRef] [PubMed]

Haas, D.

T. Weitkamp, D. Haas, D. Wegrzynek, and A. Rack, “ANKAphase: Software for single-distance phase retrieval from inline X-ray phase-contrast radiographs,” J. Synchrotron Radiat.18, 617–629 (2011).
[CrossRef] [PubMed]

Haibel, A.

Honnorat, J.

V. Desestret, J.-C. Brisset, E. Devillard, S. Moucharrafie, S. Nataf, J. Honnorat, N. Nighoghossian, Y. Berthezène, and M. Wiart, “Early stage investigations of USPIO-induced signal changes after local cerebral ischemia in mice,” Stroke40, 1834–1841 (2009).
[CrossRef] [PubMed]

Huang, P.-Y.

C.-Y. Chou and P.-Y. Huang, “Image reconstruction in phase-contrast tomography exploiting the second-order statistical properties of the projection data,” Opt. Express10, 24396–24410 (2011).
[CrossRef]

Kitchen, M. J.

M. A. Beltran, D. M. Paganin, K. Uesugi, and M. J. Kitchen, “2D and 3D X-ray phase retrieval of multi-material objects using a single defocus distance,” Opt. Express18, 6423–6436 (2010).
[CrossRef] [PubMed]

M. J. Kitchen, D. M. Paganin, R. A. Lewis, N. Yagi, and K. Uesugi, “Analysis of speckle patterns in phase-contrast images of lung tissue,” Nucl. Instrum. Methods Phys. Res., Sect. A548, 240–246 (2005).
[CrossRef]

Kyrieleis, A.

S. Titarenko, V. Titarenko, A. Kyrieleis, and P. J. Withers, “A priori information in a regularized sinogram-based method for removing ring artefacts in tomography,” J. Synchrotron Radiat.17, 540–549 (2010).
[CrossRef] [PubMed]

Langer, M.

M. Marinescu, M. Langer, A. Durand, C. Olivier, A. Chabrol, H. Rositi, F. Chauveau, T. Cho, N. Nighoghossian, Y. Berthezene, F. Peyrin, and M. Wiart, “Synchrotron radiation micro-computed tomography as a new method to detect iron oxide nanoparticles in the brain,” Mol. Imaging Biol.15, 552–559 (2013).
[CrossRef] [PubMed]

P. C. Diemoz, A. Bravin, M. Langer, and P. Coan, “Analytical and experimental determination of signal-to-noise ratio and figure of merit in three phase-contrast imaging techniques,” Opt. Express20, 27670–27690 (2012).
[CrossRef] [PubMed]

M. Langer, P. Cloetens, and F. Peyrin, “Regularization of phase retrieval with phase attenuation duality for 3D holotomography,” IEEE Trans. Image Process.19, 2428–2436 (2010).
[CrossRef] [PubMed]

M. Langer, P. Cloetens, J.-P. Guigay, and F. Peyrin, “Quantitative comparison of direct phase retrieval algorithms in in-line phase tomography,” Med. Phys.35, 4556–4566 (2008).
[CrossRef] [PubMed]

M. Langer, R. Boistel, E. Pagot, P. Cloetens, and F. Peyrin, “X-ray in-line phase microtomography for biomedical applications,” in Microscopy: Science, Technology, Applications and Education, Microscopy Book Series, A. Méndez-Vilas and J. Díaz, eds. (Formatex, 2010), pp. 391–402.

Laval-Jeantet, A. M.

M. Salome, F. Peyrin, P. Cloetens, C. Odet, A. M. Laval-Jeantet, J. Baruchel, and P. Spanne, “A synchrotron radiation microtomography system for the analysis of trabecular bone samples,” Med. Phys.26, 2194–2204 (1999).
[CrossRef] [PubMed]

Lewis, R. A.

M. J. Kitchen, D. M. Paganin, R. A. Lewis, N. Yagi, and K. Uesugi, “Analysis of speckle patterns in phase-contrast images of lung tissue,” Nucl. Instrum. Methods Phys. Res., Sect. A548, 240–246 (2005).
[CrossRef]

Lindeberg, T.

T. Lindeberg, “Detecting salient blob-like image structures and their scales with a scale space primal sketch: a method for focus-of attention,” Int. J. Comput. Vision11, 283–318 (1993).
[CrossRef]

Longo, R.

Marinescu, M.

M. Marinescu, M. Langer, A. Durand, C. Olivier, A. Chabrol, H. Rositi, F. Chauveau, T. Cho, N. Nighoghossian, Y. Berthezene, F. Peyrin, and M. Wiart, “Synchrotron radiation micro-computed tomography as a new method to detect iron oxide nanoparticles in the brain,” Mol. Imaging Biol.15, 552–559 (2013).
[CrossRef] [PubMed]

Mayo, S. C.

D. M. Paganin, S. C. Mayo, T. E. Gureyev, P. R. Miller, and S. W. Wilkins, “Simultaneous phase and amplitude extraction from a single defocused image of a homogeneous object,” J. Microsc.206, 33–40 (2002).
[CrossRef] [PubMed]

Miller, P. R.

T. E. Gureyev, Y. I. Nesterets, A. W. Stevenson, P. R. Miller, A. Pogany, and S. W. Wilkins, “Some simple rules for contrast, signal-to-noise and resolution in in-line X-ray phase-contrast imaging,” Opt. Express16, 3223–3241 (2008).
[CrossRef] [PubMed]

D. M. Paganin, S. C. Mayo, T. E. Gureyev, P. R. Miller, and S. W. Wilkins, “Simultaneous phase and amplitude extraction from a single defocused image of a homogeneous object,” J. Microsc.206, 33–40 (2002).
[CrossRef] [PubMed]

Modo, M. M.

J. W. Bulte and M. M. Modo, Nanoparticles in Biomedical Imaging (Springer, 2007).

Moucharrafie, S.

F. Chauveau, S. Moucharrafie, M. Wiart, J.-C. Brisset, Y. Berthezene, and N. Nighoghossian, “In vivo MRI assessment of permanent middle cerebral artery occlusion by electrocoagulation: Pitfalls of procedure,” Exp. Transl. Stroke Med.2, 4–8 (2010).
[CrossRef] [PubMed]

V. Desestret, J.-C. Brisset, E. Devillard, S. Moucharrafie, S. Nataf, J. Honnorat, N. Nighoghossian, Y. Berthezène, and M. Wiart, “Early stage investigations of USPIO-induced signal changes after local cerebral ischemia in mice,” Stroke40, 1834–1841 (2009).
[CrossRef] [PubMed]

Nataf, S.

V. Desestret, J.-C. Brisset, E. Devillard, S. Moucharrafie, S. Nataf, J. Honnorat, N. Nighoghossian, Y. Berthezène, and M. Wiart, “Early stage investigations of USPIO-induced signal changes after local cerebral ischemia in mice,” Stroke40, 1834–1841 (2009).
[CrossRef] [PubMed]

Nesterets, Y. I.

T. E. Gureyev, Y. I. Nesterets, A. W. Stevenson, P. R. Miller, A. Pogany, and S. W. Wilkins, “Some simple rules for contrast, signal-to-noise and resolution in in-line X-ray phase-contrast imaging,” Opt. Express16, 3223–3241 (2008).
[CrossRef] [PubMed]

Y. I. Nesterets, S. W. Wilkins, T. E. Gureyev, A. Pogany, and A. W. Stevenson, “On the optimization of experimental parameters for X-ray in-line phase-contrast imaging,” Rev. Sci. Instrum.76, 093706 (2005).
[CrossRef]

Nighoghossian, N.

M. Marinescu, M. Langer, A. Durand, C. Olivier, A. Chabrol, H. Rositi, F. Chauveau, T. Cho, N. Nighoghossian, Y. Berthezene, F. Peyrin, and M. Wiart, “Synchrotron radiation micro-computed tomography as a new method to detect iron oxide nanoparticles in the brain,” Mol. Imaging Biol.15, 552–559 (2013).
[CrossRef] [PubMed]

F. Chauveau, S. Moucharrafie, M. Wiart, J.-C. Brisset, Y. Berthezene, and N. Nighoghossian, “In vivo MRI assessment of permanent middle cerebral artery occlusion by electrocoagulation: Pitfalls of procedure,” Exp. Transl. Stroke Med.2, 4–8 (2010).
[CrossRef] [PubMed]

V. Desestret, J.-C. Brisset, E. Devillard, S. Moucharrafie, S. Nataf, J. Honnorat, N. Nighoghossian, Y. Berthezène, and M. Wiart, “Early stage investigations of USPIO-induced signal changes after local cerebral ischemia in mice,” Stroke40, 1834–1841 (2009).
[CrossRef] [PubMed]

Odet, C.

M. Salome, F. Peyrin, P. Cloetens, C. Odet, A. M. Laval-Jeantet, J. Baruchel, and P. Spanne, “A synchrotron radiation microtomography system for the analysis of trabecular bone samples,” Med. Phys.26, 2194–2204 (1999).
[CrossRef] [PubMed]

Olivier, C.

M. Marinescu, M. Langer, A. Durand, C. Olivier, A. Chabrol, H. Rositi, F. Chauveau, T. Cho, N. Nighoghossian, Y. Berthezene, F. Peyrin, and M. Wiart, “Synchrotron radiation micro-computed tomography as a new method to detect iron oxide nanoparticles in the brain,” Mol. Imaging Biol.15, 552–559 (2013).
[CrossRef] [PubMed]

Paganin, D. M.

M. A. Beltran, D. M. Paganin, K. Uesugi, and M. J. Kitchen, “2D and 3D X-ray phase retrieval of multi-material objects using a single defocus distance,” Opt. Express18, 6423–6436 (2010).
[CrossRef] [PubMed]

M. J. Kitchen, D. M. Paganin, R. A. Lewis, N. Yagi, and K. Uesugi, “Analysis of speckle patterns in phase-contrast images of lung tissue,” Nucl. Instrum. Methods Phys. Res., Sect. A548, 240–246 (2005).
[CrossRef]

D. M. Paganin, S. C. Mayo, T. E. Gureyev, P. R. Miller, and S. W. Wilkins, “Simultaneous phase and amplitude extraction from a single defocused image of a homogeneous object,” J. Microsc.206, 33–40 (2002).
[CrossRef] [PubMed]

D. M. Paganin, Coherent X-Ray Optics (OxfordScience, 2006).

Pagot, E.

M. Langer, R. Boistel, E. Pagot, P. Cloetens, and F. Peyrin, “X-ray in-line phase microtomography for biomedical applications,” in Microscopy: Science, Technology, Applications and Education, Microscopy Book Series, A. Méndez-Vilas and J. Díaz, eds. (Formatex, 2010), pp. 391–402.

Peyrin, F.

M. Marinescu, M. Langer, A. Durand, C. Olivier, A. Chabrol, H. Rositi, F. Chauveau, T. Cho, N. Nighoghossian, Y. Berthezene, F. Peyrin, and M. Wiart, “Synchrotron radiation micro-computed tomography as a new method to detect iron oxide nanoparticles in the brain,” Mol. Imaging Biol.15, 552–559 (2013).
[CrossRef] [PubMed]

M. Langer, P. Cloetens, and F. Peyrin, “Regularization of phase retrieval with phase attenuation duality for 3D holotomography,” IEEE Trans. Image Process.19, 2428–2436 (2010).
[CrossRef] [PubMed]

M. Langer, P. Cloetens, J.-P. Guigay, and F. Peyrin, “Quantitative comparison of direct phase retrieval algorithms in in-line phase tomography,” Med. Phys.35, 4556–4566 (2008).
[CrossRef] [PubMed]

M. Salome, F. Peyrin, P. Cloetens, C. Odet, A. M. Laval-Jeantet, J. Baruchel, and P. Spanne, “A synchrotron radiation microtomography system for the analysis of trabecular bone samples,” Med. Phys.26, 2194–2204 (1999).
[CrossRef] [PubMed]

M. Langer, R. Boistel, E. Pagot, P. Cloetens, and F. Peyrin, “X-ray in-line phase microtomography for biomedical applications,” in Microscopy: Science, Technology, Applications and Education, Microscopy Book Series, A. Méndez-Vilas and J. Díaz, eds. (Formatex, 2010), pp. 391–402.

Pogany, A.

T. E. Gureyev, Y. I. Nesterets, A. W. Stevenson, P. R. Miller, A. Pogany, and S. W. Wilkins, “Some simple rules for contrast, signal-to-noise and resolution in in-line X-ray phase-contrast imaging,” Opt. Express16, 3223–3241 (2008).
[CrossRef] [PubMed]

Y. I. Nesterets, S. W. Wilkins, T. E. Gureyev, A. Pogany, and A. W. Stevenson, “On the optimization of experimental parameters for X-ray in-line phase-contrast imaging,” Rev. Sci. Instrum.76, 093706 (2005).
[CrossRef]

Rack, A.

T. Weitkamp, D. Haas, D. Wegrzynek, and A. Rack, “ANKAphase: Software for single-distance phase retrieval from inline X-ray phase-contrast radiographs,” J. Synchrotron Radiat.18, 617–629 (2011).
[CrossRef] [PubMed]

Raven, C.

C. Raven, “Numerical removal of ring artifacts in microtomography,” Rev. Sci. Instrum.69, 2978–2980 (1998).
[CrossRef]

Réfrégier, P.

F. Goudail and P. Réfrégier, Statistical Image Processing Techniques for Noisy Images: An Application-Oriented Approach (Kluwer Academic, 2004).

Rigon, L.

Rositi, H.

M. Marinescu, M. Langer, A. Durand, C. Olivier, A. Chabrol, H. Rositi, F. Chauveau, T. Cho, N. Nighoghossian, Y. Berthezene, F. Peyrin, and M. Wiart, “Synchrotron radiation micro-computed tomography as a new method to detect iron oxide nanoparticles in the brain,” Mol. Imaging Biol.15, 552–559 (2013).
[CrossRef] [PubMed]

Salome, M.

M. Salome, F. Peyrin, P. Cloetens, C. Odet, A. M. Laval-Jeantet, J. Baruchel, and P. Spanne, “A synchrotron radiation microtomography system for the analysis of trabecular bone samples,” Med. Phys.26, 2194–2204 (1999).
[CrossRef] [PubMed]

Sanchez del Rio, M.

R. J. Dejus and M. Sanchez del Rio, “Xop: A graphical user interface for spectral calculations and X-ray optics utilities,” Rev. Sci. Instrum.67, 3356 (1996).
[CrossRef]

Spanne, P.

M. Salome, F. Peyrin, P. Cloetens, C. Odet, A. M. Laval-Jeantet, J. Baruchel, and P. Spanne, “A synchrotron radiation microtomography system for the analysis of trabecular bone samples,” Med. Phys.26, 2194–2204 (1999).
[CrossRef] [PubMed]

Stevenson, A. W.

T. E. Gureyev, Y. I. Nesterets, A. W. Stevenson, P. R. Miller, A. Pogany, and S. W. Wilkins, “Some simple rules for contrast, signal-to-noise and resolution in in-line X-ray phase-contrast imaging,” Opt. Express16, 3223–3241 (2008).
[CrossRef] [PubMed]

Y. I. Nesterets, S. W. Wilkins, T. E. Gureyev, A. Pogany, and A. W. Stevenson, “On the optimization of experimental parameters for X-ray in-line phase-contrast imaging,” Rev. Sci. Instrum.76, 093706 (2005).
[CrossRef]

Suortti, P.

A. Bravin, P. Coan, and P. Suortti, “X-ray phase-contrast imaging: From pre-clinical applications towards clinics,” Phys. Med. Biol.58, R1–35 (2013).
[CrossRef]

Titarenko, S.

S. Titarenko, V. Titarenko, A. Kyrieleis, and P. J. Withers, “A priori information in a regularized sinogram-based method for removing ring artefacts in tomography,” J. Synchrotron Radiat.17, 540–549 (2010).
[CrossRef] [PubMed]

Titarenko, V.

S. Titarenko, V. Titarenko, A. Kyrieleis, and P. J. Withers, “A priori information in a regularized sinogram-based method for removing ring artefacts in tomography,” J. Synchrotron Radiat.17, 540–549 (2010).
[CrossRef] [PubMed]

Uesugi, K.

M. A. Beltran, D. M. Paganin, K. Uesugi, and M. J. Kitchen, “2D and 3D X-ray phase retrieval of multi-material objects using a single defocus distance,” Opt. Express18, 6423–6436 (2010).
[CrossRef] [PubMed]

M. J. Kitchen, D. M. Paganin, R. A. Lewis, N. Yagi, and K. Uesugi, “Analysis of speckle patterns in phase-contrast images of lung tissue,” Nucl. Instrum. Methods Phys. Res., Sect. A548, 240–246 (2005).
[CrossRef]

Wegrzynek, D.

T. Weitkamp, D. Haas, D. Wegrzynek, and A. Rack, “ANKAphase: Software for single-distance phase retrieval from inline X-ray phase-contrast radiographs,” J. Synchrotron Radiat.18, 617–629 (2011).
[CrossRef] [PubMed]

Weitkamp, T.

T. Weitkamp, D. Haas, D. Wegrzynek, and A. Rack, “ANKAphase: Software for single-distance phase retrieval from inline X-ray phase-contrast radiographs,” J. Synchrotron Radiat.18, 617–629 (2011).
[CrossRef] [PubMed]

Wiart, M.

M. Marinescu, M. Langer, A. Durand, C. Olivier, A. Chabrol, H. Rositi, F. Chauveau, T. Cho, N. Nighoghossian, Y. Berthezene, F. Peyrin, and M. Wiart, “Synchrotron radiation micro-computed tomography as a new method to detect iron oxide nanoparticles in the brain,” Mol. Imaging Biol.15, 552–559 (2013).
[CrossRef] [PubMed]

F. Chauveau, S. Moucharrafie, M. Wiart, J.-C. Brisset, Y. Berthezene, and N. Nighoghossian, “In vivo MRI assessment of permanent middle cerebral artery occlusion by electrocoagulation: Pitfalls of procedure,” Exp. Transl. Stroke Med.2, 4–8 (2010).
[CrossRef] [PubMed]

V. Desestret, J.-C. Brisset, E. Devillard, S. Moucharrafie, S. Nataf, J. Honnorat, N. Nighoghossian, Y. Berthezène, and M. Wiart, “Early stage investigations of USPIO-induced signal changes after local cerebral ischemia in mice,” Stroke40, 1834–1841 (2009).
[CrossRef] [PubMed]

Wilkins, S. W.

T. E. Gureyev, Y. I. Nesterets, A. W. Stevenson, P. R. Miller, A. Pogany, and S. W. Wilkins, “Some simple rules for contrast, signal-to-noise and resolution in in-line X-ray phase-contrast imaging,” Opt. Express16, 3223–3241 (2008).
[CrossRef] [PubMed]

Y. I. Nesterets, S. W. Wilkins, T. E. Gureyev, A. Pogany, and A. W. Stevenson, “On the optimization of experimental parameters for X-ray in-line phase-contrast imaging,” Rev. Sci. Instrum.76, 093706 (2005).
[CrossRef]

D. M. Paganin, S. C. Mayo, T. E. Gureyev, P. R. Miller, and S. W. Wilkins, “Simultaneous phase and amplitude extraction from a single defocused image of a homogeneous object,” J. Microsc.206, 33–40 (2002).
[CrossRef] [PubMed]

Withers, P. J.

S. Titarenko, V. Titarenko, A. Kyrieleis, and P. J. Withers, “A priori information in a regularized sinogram-based method for removing ring artefacts in tomography,” J. Synchrotron Radiat.17, 540–549 (2010).
[CrossRef] [PubMed]

Xiao, T. Q.

Xie, H. L.

Yagi, N.

M. J. Kitchen, D. M. Paganin, R. A. Lewis, N. Yagi, and K. Uesugi, “Analysis of speckle patterns in phase-contrast images of lung tissue,” Nucl. Instrum. Methods Phys. Res., Sect. A548, 240–246 (2005).
[CrossRef]

Exp. Transl. Stroke Med. (1)

F. Chauveau, S. Moucharrafie, M. Wiart, J.-C. Brisset, Y. Berthezene, and N. Nighoghossian, “In vivo MRI assessment of permanent middle cerebral artery occlusion by electrocoagulation: Pitfalls of procedure,” Exp. Transl. Stroke Med.2, 4–8 (2010).
[CrossRef] [PubMed]

IEEE Trans. Image Process. (1)

M. Langer, P. Cloetens, and F. Peyrin, “Regularization of phase retrieval with phase attenuation duality for 3D holotomography,” IEEE Trans. Image Process.19, 2428–2436 (2010).
[CrossRef] [PubMed]

Int. J. Comput. Vision (1)

T. Lindeberg, “Detecting salient blob-like image structures and their scales with a scale space primal sketch: a method for focus-of attention,” Int. J. Comput. Vision11, 283–318 (1993).
[CrossRef]

J. Microsc. (1)

D. M. Paganin, S. C. Mayo, T. E. Gureyev, P. R. Miller, and S. W. Wilkins, “Simultaneous phase and amplitude extraction from a single defocused image of a homogeneous object,” J. Microsc.206, 33–40 (2002).
[CrossRef] [PubMed]

J. Synchrotron Radiat. (2)

S. Titarenko, V. Titarenko, A. Kyrieleis, and P. J. Withers, “A priori information in a regularized sinogram-based method for removing ring artefacts in tomography,” J. Synchrotron Radiat.17, 540–549 (2010).
[CrossRef] [PubMed]

T. Weitkamp, D. Haas, D. Wegrzynek, and A. Rack, “ANKAphase: Software for single-distance phase retrieval from inline X-ray phase-contrast radiographs,” J. Synchrotron Radiat.18, 617–629 (2011).
[CrossRef] [PubMed]

Med. Phys. (3)

M. Langer, P. Cloetens, J.-P. Guigay, and F. Peyrin, “Quantitative comparison of direct phase retrieval algorithms in in-line phase tomography,” Med. Phys.35, 4556–4566 (2008).
[CrossRef] [PubMed]

M. Salome, F. Peyrin, P. Cloetens, C. Odet, A. M. Laval-Jeantet, J. Baruchel, and P. Spanne, “A synchrotron radiation microtomography system for the analysis of trabecular bone samples,” Med. Phys.26, 2194–2204 (1999).
[CrossRef] [PubMed]

C.-Y. Chou and M. A. Anastasio, “Noise texture and signal detectability in propagation based x-ray phase-contrast tomography,” Med. Phys.37, 270–291 (2011).
[CrossRef]

Mol. Imaging Biol. (1)

M. Marinescu, M. Langer, A. Durand, C. Olivier, A. Chabrol, H. Rositi, F. Chauveau, T. Cho, N. Nighoghossian, Y. Berthezene, F. Peyrin, and M. Wiart, “Synchrotron radiation micro-computed tomography as a new method to detect iron oxide nanoparticles in the brain,” Mol. Imaging Biol.15, 552–559 (2013).
[CrossRef] [PubMed]

Nucl. Instrum. Methods Phys. Res., Sect. A (1)

M. J. Kitchen, D. M. Paganin, R. A. Lewis, N. Yagi, and K. Uesugi, “Analysis of speckle patterns in phase-contrast images of lung tissue,” Nucl. Instrum. Methods Phys. Res., Sect. A548, 240–246 (2005).
[CrossRef]

Opt. Express (6)

Opt. Express. (1)

C.-Y. Chou and M. A. Anastasio, “Influence of imaging geometry on noise texture in quantitative in-line X-ray phase-contrast imaging,” Opt. Express.17, 14466–14480 (2009).
[CrossRef] [PubMed]

Opt. Lett. (1)

Phys. Med. Biol. (1)

A. Bravin, P. Coan, and P. Suortti, “X-ray phase-contrast imaging: From pre-clinical applications towards clinics,” Phys. Med. Biol.58, R1–35 (2013).
[CrossRef]

Rev. Sci. Instrum. (3)

Y. I. Nesterets, S. W. Wilkins, T. E. Gureyev, A. Pogany, and A. W. Stevenson, “On the optimization of experimental parameters for X-ray in-line phase-contrast imaging,” Rev. Sci. Instrum.76, 093706 (2005).
[CrossRef]

R. J. Dejus and M. Sanchez del Rio, “Xop: A graphical user interface for spectral calculations and X-ray optics utilities,” Rev. Sci. Instrum.67, 3356 (1996).
[CrossRef]

C. Raven, “Numerical removal of ring artifacts in microtomography,” Rev. Sci. Instrum.69, 2978–2980 (1998).
[CrossRef]

Stroke (1)

V. Desestret, J.-C. Brisset, E. Devillard, S. Moucharrafie, S. Nataf, J. Honnorat, N. Nighoghossian, Y. Berthezène, and M. Wiart, “Early stage investigations of USPIO-induced signal changes after local cerebral ischemia in mice,” Stroke40, 1834–1841 (2009).
[CrossRef] [PubMed]

Other (4)

F. Goudail and P. Réfrégier, Statistical Image Processing Techniques for Noisy Images: An Application-Oriented Approach (Kluwer Academic, 2004).

J. W. Bulte and M. M. Modo, Nanoparticles in Biomedical Imaging (Springer, 2007).

D. M. Paganin, Coherent X-Ray Optics (OxfordScience, 2006).

M. Langer, R. Boistel, E. Pagot, P. Cloetens, and F. Peyrin, “X-ray in-line phase microtomography for biomedical applications,” in Microscopy: Science, Technology, Applications and Education, Microscopy Book Series, A. Méndez-Vilas and J. Díaz, eds. (Formatex, 2010), pp. 391–402.

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