B. Zhang, J. Tian, D. Liu, L. Sun, X. Yang, and D. Han, “A multithread based new sparse matrix method in bioluminescence tomography”, presented at Conference 7626 of SPIE on Medical Imaging, San Diego, USA, 13–18 February 2010.

C. Qin, J. Tian, X. Yang, J. Feng, K. Liu, J. Liu, G. Yan, S. Zhu, and M. Xu, “Adaptive improved element free Galerkin method for quasi or multi spectral bioluminescence tomography,” Opt. Express 17, 21925–21934 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-24-21925.

[CrossRef]
[PubMed]

J. Feng, K. Jia, C. Qin, G. Yan, S. Zhu, X. Zhang, J. Liu, and J. Tian, “Three-dimensional Bioluminescence Tomography based on Bayesian Approach,” Opt. Express 17, 16834–16848 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-19-16834.

[CrossRef]
[PubMed]

Y. Lu, X. Zhang, A. Douraghy, D. Stout, J. Tian, T. F. Chan, and A. F. Chatziioannou, “Source Reconstruction for spectrally-resolved bioluminescence tomography with sparse a priori information,” Opt. Express 17, 8062–8080 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-10-8062.

[CrossRef]
[PubMed]

Y. Lu, A. Douraghy, H. B. Machado, D. Stout, J. Tian, H. Herschman, and A. F. Chatziioannou, “Spectrally-resolved bioluminescence tomography with the third-order simplified spherical harmonics approximation. Physics in Medicine and Biology,” 59, 6477–6493 (2009).

X. L. Cheng, R. F. Gong, and W. M. Han, “Numerical approximation of bioluminescence tomography based on a new formulation,” Journal of Engineering Mathematics 63, 121–133 (2009).

[CrossRef]

M. Chua and H. Dehghani, “Image reconstruction in diffuse optical tomography based on simplified spherical harmonics approximation,” Opt. Express 17, 24208–24223, (2009), http://www.opticsinfobase.org/abstract.cfm?URI=oe-17-26-24208.

[CrossRef]

H. Dehghani, S. C. Davis, and B. W. Pogue, “Spectrally resolved bioluminescence tomography using the reciprocity approach,” Medical Physics 35, 4863–4871 (2008).

[CrossRef]
[PubMed]

W. Gong, R. Li, N. N. Yan, and W.B. Zhao, “An improved error analysis for finite element approximation of bioluminescence tomography,” Journal of Computational Mathematics 26, 297–309 (2008).

M. B. Unlu and G. Gulsen, “Effects of the time dependence of a bioluminescent source on the tomographic reconstruction,” Appl. Opt. 47, 799–806 (2008).

[CrossRef]

J. Feng, K. Jia, G. Yan, S. Zhu, C. Qin, Y. Lv, and J. Tian, “An optimal permissible source region strategy for multispectral bioluminescence tomography,” Opt. Express 16, 15640–15654 (2008), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-16-20-15640.

[CrossRef]
[PubMed]

R. Weissleder and M. J. Pittet, “Imaging in the era of molecular oncology,” Nature 452, 580–589 (2008).

[CrossRef]
[PubMed]

J. K. Willmann, N. van Bruggen, L. M. Dinkelborg, and S. S. Gambhir, “Molecular imaging in drug development,” Nat. Rev. Drug Discov. 7, 591–607 (2008).

[CrossRef]
[PubMed]

J. Tian, J. Bai, X.-P. Yan, S. Bao, Y. Li, W. Liang, and X. Yang, “Multimodality molecular imaging,” IEEE Eng. Med. Bio. Mag. 27, 48–57 (2008).

[CrossRef]

D. Qin, H. Zhao, Y. Tanikawa, and F. Gao, “Experimental determination of optical properties in turbid medium by TCSPC technique,” Proc. SPIE 6434, 64342E (2007).

[CrossRef]

Y. Lv, J. Tian, H. Li, W. Cong, G. Wang, W. Yang, C. Qin, and M. Xu, “Spectrally resolved bioluminescence tomography with adaptive finite element: methodology and simulation,” Phys. Med. Biol. 52, 1–16 (2007).

[CrossRef]

V. Soloviev, “Tomographic bioluminescence imaging with varying boundary conditions,” Applied Optics 46, 2778–2784 (2007).

[CrossRef]
[PubMed]

M. K. So, C. J. Xu, A. M. Loening, S. S. Gambhir, and J. H. Rao, “Self-illuminating quantum dot conjugates for in vivo imaging,” Nature Biotechnol. 24, 339–343 (2006).

[CrossRef]

W. M. Han, W. X. Cong, and G. Wang, “Mathematical theory and numerical analysis of bioluminescence tomography,” Inverse Problems 22, 1659–1675 (2006).

[CrossRef]

Y. Lv, J. Tian, W. Cong, G. Wang, J. Luo, W. Yang, and H. Li, “A multilevel adaptive finite element algorithm for bioluminescence tomography,” Opt. Express 14, 8211–8223 (2006), http://www.opticsinfobase.org/abstract.cfm?URI=oe-14-18-8211.

[CrossRef]
[PubMed]

V. Ntziachristos, J. Ripoll, L. H. V. Wang, and R. Weissleder, “Looking and listening to light: the evolution of whole-body photonic imaging,” Nature Biotechnol. 23, 313–320 (2005).

[CrossRef]

Y. Wang and Y. Yuan, “Convergence and regularity of trust region methods for nonlinear ill-posed inverse problems,” Inverse Problems 21, 821–838, (2005).

[CrossRef]

G. Alexandrakis, F. R. Rannou, and A. F. Chatziioannou, “Tomographic bioluminescence imaging by use of a combined optical-PET (OPET) system: a computer simulation feasibility study,” Phys. Med. Biol. 50, 4225–4241 (2005).

[CrossRef]
[PubMed]

W. Cong, D. Kumar, Y. Liu, A. Cong, and G. Wang, “A practical method to determine the light source distribution in bioluminescent imaging,” Proc. SPIE 5535, 679–686 (2004).

[CrossRef]

R. Schultz, J. Ripoll, and V. Ntziachristos, “Experimental fluorescence tomography of tissues with noncontact measurements,” IEEE Trans. Med. Imag. 23, 492–500 (2004).

[CrossRef]

H. Li, J. Tian, F. Zhu, W. Cong, L. V. Wang, E. A. Hoffman, and G. Wang, “A mouse optical simulation enviroment (MOSE) to investigate bioluminescent phenomena in the living mouse with the Monte Carlo Method,” Acad. Radiol. 11, 1029–1038 (2004).

[CrossRef]
[PubMed]

R. Weissleder and V. Ntziachristos, “Shedding light onto live molecular targets,” Nature Medicine 9, 123–128 (2003).

[CrossRef]
[PubMed]

C. Contag and M. H. Bachmann, “Advances in Bioluminescence imaging of gene expression,” Annu. Rev. Biomed. Eng. 4, 235–260 (2002).

[CrossRef]
[PubMed]

V. Ntziachristos, C. Tung, C. Bremer, and R. Weissleder, “Fluorescence molecular tomography resolves protease activity in vivo,” Nat. Med. 8, 757–760 (2002).

[CrossRef]
[PubMed]

D. Boas, J. Culver, J. Stott, and A. Dunn, “Three dimensional Monte Carlo code for photon migration through complex heterogeneous media including the adult human head,” Opt. Express 10, 159–169 (2002), http://www.opticsinfobase.org/abstract.cfm?URI=OPEX-10-3-159.

[PubMed]

L. H. Wang, S. L. Jacques, and L. Q. Zheng, “MCML-Monte Carlo modeling of photon transport in multi-layered tissues,” Comput. Meth. Prog. Biomed. 47, 131–146 (1995).

[CrossRef]

M. Schweiger, S. R. Arridge, M. Hiraoka, and D. T. Delpy, “The finite element method for the propagation of light in scattering media: Boundary and source conditions,” Med. Phys. 22, 1779–1792 (1995).

[CrossRef]
[PubMed]

S. R. Arridge, M. Schweiger, M. Hiraoka, and D. T. Delpy, “A finite element approach for modeling photon transport in tissue,” Med. Phys. 20, 299–309 (1993).

[CrossRef]
[PubMed]

D. W. Marquardt, “An algorithm for least-squares estimation of nonlinear parameters,” SIAM J. Appl. Math. 11, 431–441 (1963).

[CrossRef]

K. Levenberg, “A method for the solution of certain nonlinear problems,” Quart. Appl. Math. 2, 164–168 (1944).

G. Alexandrakis, F. R. Rannou, and A. F. Chatziioannou, “Tomographic bioluminescence imaging by use of a combined optical-PET (OPET) system: a computer simulation feasibility study,” Phys. Med. Biol. 50, 4225–4241 (2005).

[CrossRef]
[PubMed]

M. Schweiger, S. R. Arridge, M. Hiraoka, and D. T. Delpy, “The finite element method for the propagation of light in scattering media: Boundary and source conditions,” Med. Phys. 22, 1779–1792 (1995).

[CrossRef]
[PubMed]

S. R. Arridge, M. Schweiger, M. Hiraoka, and D. T. Delpy, “A finite element approach for modeling photon transport in tissue,” Med. Phys. 20, 299–309 (1993).

[CrossRef]
[PubMed]

C. Contag and M. H. Bachmann, “Advances in Bioluminescence imaging of gene expression,” Annu. Rev. Biomed. Eng. 4, 235–260 (2002).

[CrossRef]
[PubMed]

J. Tian, J. Bai, X.-P. Yan, S. Bao, Y. Li, W. Liang, and X. Yang, “Multimodality molecular imaging,” IEEE Eng. Med. Bio. Mag. 27, 48–57 (2008).

[CrossRef]

J. Tian, J. Bai, X.-P. Yan, S. Bao, Y. Li, W. Liang, and X. Yang, “Multimodality molecular imaging,” IEEE Eng. Med. Bio. Mag. 27, 48–57 (2008).

[CrossRef]

V. Ntziachristos, C. Tung, C. Bremer, and R. Weissleder, “Fluorescence molecular tomography resolves protease activity in vivo,” Nat. Med. 8, 757–760 (2002).

[CrossRef]
[PubMed]

J. K. Willmann, N. van Bruggen, L. M. Dinkelborg, and S. S. Gambhir, “Molecular imaging in drug development,” Nat. Rev. Drug Discov. 7, 591–607 (2008).

[CrossRef]
[PubMed]

Y. Lu, X. Zhang, A. Douraghy, D. Stout, J. Tian, T. F. Chan, and A. F. Chatziioannou, “Source Reconstruction for spectrally-resolved bioluminescence tomography with sparse a priori information,” Opt. Express 17, 8062–8080 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-10-8062.

[CrossRef]
[PubMed]

Y. Lu, X. Zhang, A. Douraghy, D. Stout, J. Tian, T. F. Chan, and A. F. Chatziioannou, “Source Reconstruction for spectrally-resolved bioluminescence tomography with sparse a priori information,” Opt. Express 17, 8062–8080 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-10-8062.

[CrossRef]
[PubMed]

Y. Lu, A. Douraghy, H. B. Machado, D. Stout, J. Tian, H. Herschman, and A. F. Chatziioannou, “Spectrally-resolved bioluminescence tomography with the third-order simplified spherical harmonics approximation. Physics in Medicine and Biology,” 59, 6477–6493 (2009).

G. Alexandrakis, F. R. Rannou, and A. F. Chatziioannou, “Tomographic bioluminescence imaging by use of a combined optical-PET (OPET) system: a computer simulation feasibility study,” Phys. Med. Biol. 50, 4225–4241 (2005).

[CrossRef]
[PubMed]

X. L. Cheng, R. F. Gong, and W. M. Han, “Numerical approximation of bioluminescence tomography based on a new formulation,” Journal of Engineering Mathematics 63, 121–133 (2009).

[CrossRef]

W. Cong, D. Kumar, Y. Liu, A. Cong, and G. Wang, “A practical method to determine the light source distribution in bioluminescent imaging,” Proc. SPIE 5535, 679–686 (2004).

[CrossRef]

Y. Lv, J. Tian, H. Li, W. Cong, G. Wang, W. Yang, C. Qin, and M. Xu, “Spectrally resolved bioluminescence tomography with adaptive finite element: methodology and simulation,” Phys. Med. Biol. 52, 1–16 (2007).

[CrossRef]

Y. Lv, J. Tian, W. Cong, G. Wang, J. Luo, W. Yang, and H. Li, “A multilevel adaptive finite element algorithm for bioluminescence tomography,” Opt. Express 14, 8211–8223 (2006), http://www.opticsinfobase.org/abstract.cfm?URI=oe-14-18-8211.

[CrossRef]
[PubMed]

W. Cong, D. Kumar, Y. Liu, A. Cong, and G. Wang, “A practical method to determine the light source distribution in bioluminescent imaging,” Proc. SPIE 5535, 679–686 (2004).

[CrossRef]

H. Li, J. Tian, F. Zhu, W. Cong, L. V. Wang, E. A. Hoffman, and G. Wang, “A mouse optical simulation enviroment (MOSE) to investigate bioluminescent phenomena in the living mouse with the Monte Carlo Method,” Acad. Radiol. 11, 1029–1038 (2004).

[CrossRef]
[PubMed]

W. M. Han, W. X. Cong, and G. Wang, “Mathematical theory and numerical analysis of bioluminescence tomography,” Inverse Problems 22, 1659–1675 (2006).

[CrossRef]

C. Contag and M. H. Bachmann, “Advances in Bioluminescence imaging of gene expression,” Annu. Rev. Biomed. Eng. 4, 235–260 (2002).

[CrossRef]
[PubMed]

H. Dehghani, S. C. Davis, and B. W. Pogue, “Spectrally resolved bioluminescence tomography using the reciprocity approach,” Medical Physics 35, 4863–4871 (2008).

[CrossRef]
[PubMed]

M. Chua and H. Dehghani, “Image reconstruction in diffuse optical tomography based on simplified spherical harmonics approximation,” Opt. Express 17, 24208–24223, (2009), http://www.opticsinfobase.org/abstract.cfm?URI=oe-17-26-24208.

[CrossRef]

H. Dehghani, S. C. Davis, and B. W. Pogue, “Spectrally resolved bioluminescence tomography using the reciprocity approach,” Medical Physics 35, 4863–4871 (2008).

[CrossRef]
[PubMed]

M. Schweiger, S. R. Arridge, M. Hiraoka, and D. T. Delpy, “The finite element method for the propagation of light in scattering media: Boundary and source conditions,” Med. Phys. 22, 1779–1792 (1995).

[CrossRef]
[PubMed]

S. R. Arridge, M. Schweiger, M. Hiraoka, and D. T. Delpy, “A finite element approach for modeling photon transport in tissue,” Med. Phys. 20, 299–309 (1993).

[CrossRef]
[PubMed]

J. K. Willmann, N. van Bruggen, L. M. Dinkelborg, and S. S. Gambhir, “Molecular imaging in drug development,” Nat. Rev. Drug Discov. 7, 591–607 (2008).

[CrossRef]
[PubMed]

Y. Lu, A. Douraghy, H. B. Machado, D. Stout, J. Tian, H. Herschman, and A. F. Chatziioannou, “Spectrally-resolved bioluminescence tomography with the third-order simplified spherical harmonics approximation. Physics in Medicine and Biology,” 59, 6477–6493 (2009).

Y. Lu, X. Zhang, A. Douraghy, D. Stout, J. Tian, T. F. Chan, and A. F. Chatziioannou, “Source Reconstruction for spectrally-resolved bioluminescence tomography with sparse a priori information,” Opt. Express 17, 8062–8080 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-10-8062.

[CrossRef]
[PubMed]

J. J. Duderstadt and L. J. Hamilton, Nuclear Reactor analysis (Wiley, New York, 1976).

C. Qin, J. Tian, X. Yang, J. Feng, K. Liu, J. Liu, G. Yan, S. Zhu, and M. Xu, “Adaptive improved element free Galerkin method for quasi or multi spectral bioluminescence tomography,” Opt. Express 17, 21925–21934 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-24-21925.

[CrossRef]
[PubMed]

J. Feng, K. Jia, C. Qin, G. Yan, S. Zhu, X. Zhang, J. Liu, and J. Tian, “Three-dimensional Bioluminescence Tomography based on Bayesian Approach,” Opt. Express 17, 16834–16848 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-19-16834.

[CrossRef]
[PubMed]

J. Feng, K. Jia, G. Yan, S. Zhu, C. Qin, Y. Lv, and J. Tian, “An optimal permissible source region strategy for multispectral bioluminescence tomography,” Opt. Express 16, 15640–15654 (2008), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-16-20-15640.

[CrossRef]
[PubMed]

J. K. Willmann, N. van Bruggen, L. M. Dinkelborg, and S. S. Gambhir, “Molecular imaging in drug development,” Nat. Rev. Drug Discov. 7, 591–607 (2008).

[CrossRef]
[PubMed]

M. K. So, C. J. Xu, A. M. Loening, S. S. Gambhir, and J. H. Rao, “Self-illuminating quantum dot conjugates for in vivo imaging,” Nature Biotechnol. 24, 339–343 (2006).

[CrossRef]

D. Qin, H. Zhao, Y. Tanikawa, and F. Gao, “Experimental determination of optical properties in turbid medium by TCSPC technique,” Proc. SPIE 6434, 64342E (2007).

[CrossRef]

X. L. Cheng, R. F. Gong, and W. M. Han, “Numerical approximation of bioluminescence tomography based on a new formulation,” Journal of Engineering Mathematics 63, 121–133 (2009).

[CrossRef]

W. Gong, R. Li, N. N. Yan, and W.B. Zhao, “An improved error analysis for finite element approximation of bioluminescence tomography,” Journal of Computational Mathematics 26, 297–309 (2008).

J. J. Duderstadt and L. J. Hamilton, Nuclear Reactor analysis (Wiley, New York, 1976).

B. Zhang, J. Tian, D. Liu, L. Sun, X. Yang, and D. Han, “A multithread based new sparse matrix method in bioluminescence tomography”, presented at Conference 7626 of SPIE on Medical Imaging, San Diego, USA, 13–18 February 2010.

X. L. Cheng, R. F. Gong, and W. M. Han, “Numerical approximation of bioluminescence tomography based on a new formulation,” Journal of Engineering Mathematics 63, 121–133 (2009).

[CrossRef]

W. M. Han, W. X. Cong, and G. Wang, “Mathematical theory and numerical analysis of bioluminescence tomography,” Inverse Problems 22, 1659–1675 (2006).

[CrossRef]

Y. Lu, A. Douraghy, H. B. Machado, D. Stout, J. Tian, H. Herschman, and A. F. Chatziioannou, “Spectrally-resolved bioluminescence tomography with the third-order simplified spherical harmonics approximation. Physics in Medicine and Biology,” 59, 6477–6493 (2009).

M. Schweiger, S. R. Arridge, M. Hiraoka, and D. T. Delpy, “The finite element method for the propagation of light in scattering media: Boundary and source conditions,” Med. Phys. 22, 1779–1792 (1995).

[CrossRef]
[PubMed]

S. R. Arridge, M. Schweiger, M. Hiraoka, and D. T. Delpy, “A finite element approach for modeling photon transport in tissue,” Med. Phys. 20, 299–309 (1993).

[CrossRef]
[PubMed]

H. Li, J. Tian, F. Zhu, W. Cong, L. V. Wang, E. A. Hoffman, and G. Wang, “A mouse optical simulation enviroment (MOSE) to investigate bioluminescent phenomena in the living mouse with the Monte Carlo Method,” Acad. Radiol. 11, 1029–1038 (2004).

[CrossRef]
[PubMed]

V. Isakov, Inverse Problems for Partial Differential Equations (Springer-Verlag, New York, 1998).

L. H. Wang, S. L. Jacques, and L. Q. Zheng, “MCML-Monte Carlo modeling of photon transport in multi-layered tissues,” Comput. Meth. Prog. Biomed. 47, 131–146 (1995).

[CrossRef]

J. Feng, K. Jia, C. Qin, G. Yan, S. Zhu, X. Zhang, J. Liu, and J. Tian, “Three-dimensional Bioluminescence Tomography based on Bayesian Approach,” Opt. Express 17, 16834–16848 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-19-16834.

[CrossRef]
[PubMed]

J. Feng, K. Jia, G. Yan, S. Zhu, C. Qin, Y. Lv, and J. Tian, “An optimal permissible source region strategy for multispectral bioluminescence tomography,” Opt. Express 16, 15640–15654 (2008), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-16-20-15640.

[CrossRef]
[PubMed]

W. Cong, D. Kumar, Y. Liu, A. Cong, and G. Wang, “A practical method to determine the light source distribution in bioluminescent imaging,” Proc. SPIE 5535, 679–686 (2004).

[CrossRef]

K. Levenberg, “A method for the solution of certain nonlinear problems,” Quart. Appl. Math. 2, 164–168 (1944).

Y. Lv, J. Tian, H. Li, W. Cong, G. Wang, W. Yang, C. Qin, and M. Xu, “Spectrally resolved bioluminescence tomography with adaptive finite element: methodology and simulation,” Phys. Med. Biol. 52, 1–16 (2007).

[CrossRef]

Y. Lv, J. Tian, W. Cong, G. Wang, J. Luo, W. Yang, and H. Li, “A multilevel adaptive finite element algorithm for bioluminescence tomography,” Opt. Express 14, 8211–8223 (2006), http://www.opticsinfobase.org/abstract.cfm?URI=oe-14-18-8211.

[CrossRef]
[PubMed]

H. Li, J. Tian, F. Zhu, W. Cong, L. V. Wang, E. A. Hoffman, and G. Wang, “A mouse optical simulation enviroment (MOSE) to investigate bioluminescent phenomena in the living mouse with the Monte Carlo Method,” Acad. Radiol. 11, 1029–1038 (2004).

[CrossRef]
[PubMed]

W. Gong, R. Li, N. N. Yan, and W.B. Zhao, “An improved error analysis for finite element approximation of bioluminescence tomography,” Journal of Computational Mathematics 26, 297–309 (2008).

J. Tian, J. Bai, X.-P. Yan, S. Bao, Y. Li, W. Liang, and X. Yang, “Multimodality molecular imaging,” IEEE Eng. Med. Bio. Mag. 27, 48–57 (2008).

[CrossRef]

J. Tian, J. Bai, X.-P. Yan, S. Bao, Y. Li, W. Liang, and X. Yang, “Multimodality molecular imaging,” IEEE Eng. Med. Bio. Mag. 27, 48–57 (2008).

[CrossRef]

B. Zhang, J. Tian, D. Liu, L. Sun, X. Yang, and D. Han, “A multithread based new sparse matrix method in bioluminescence tomography”, presented at Conference 7626 of SPIE on Medical Imaging, San Diego, USA, 13–18 February 2010.

C. Qin, J. Tian, X. Yang, J. Feng, K. Liu, J. Liu, G. Yan, S. Zhu, and M. Xu, “Adaptive improved element free Galerkin method for quasi or multi spectral bioluminescence tomography,” Opt. Express 17, 21925–21934 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-24-21925.

[CrossRef]
[PubMed]

J. Feng, K. Jia, C. Qin, G. Yan, S. Zhu, X. Zhang, J. Liu, and J. Tian, “Three-dimensional Bioluminescence Tomography based on Bayesian Approach,” Opt. Express 17, 16834–16848 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-19-16834.

[CrossRef]
[PubMed]

C. Qin, J. Tian, X. Yang, J. Feng, K. Liu, J. Liu, G. Yan, S. Zhu, and M. Xu, “Adaptive improved element free Galerkin method for quasi or multi spectral bioluminescence tomography,” Opt. Express 17, 21925–21934 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-24-21925.

[CrossRef]
[PubMed]

W. Cong, D. Kumar, Y. Liu, A. Cong, and G. Wang, “A practical method to determine the light source distribution in bioluminescent imaging,” Proc. SPIE 5535, 679–686 (2004).

[CrossRef]

M. K. So, C. J. Xu, A. M. Loening, S. S. Gambhir, and J. H. Rao, “Self-illuminating quantum dot conjugates for in vivo imaging,” Nature Biotechnol. 24, 339–343 (2006).

[CrossRef]

Y. Lu, X. Zhang, A. Douraghy, D. Stout, J. Tian, T. F. Chan, and A. F. Chatziioannou, “Source Reconstruction for spectrally-resolved bioluminescence tomography with sparse a priori information,” Opt. Express 17, 8062–8080 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-10-8062.

[CrossRef]
[PubMed]

Y. Lu, A. Douraghy, H. B. Machado, D. Stout, J. Tian, H. Herschman, and A. F. Chatziioannou, “Spectrally-resolved bioluminescence tomography with the third-order simplified spherical harmonics approximation. Physics in Medicine and Biology,” 59, 6477–6493 (2009).

Y. Lv, J. Tian, W. Cong, G. Wang, J. Luo, W. Yang, and H. Li, “A multilevel adaptive finite element algorithm for bioluminescence tomography,” Opt. Express 14, 8211–8223 (2006), http://www.opticsinfobase.org/abstract.cfm?URI=oe-14-18-8211.

[CrossRef]
[PubMed]

J. Feng, K. Jia, G. Yan, S. Zhu, C. Qin, Y. Lv, and J. Tian, “An optimal permissible source region strategy for multispectral bioluminescence tomography,” Opt. Express 16, 15640–15654 (2008), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-16-20-15640.

[CrossRef]
[PubMed]

Y. Lv, J. Tian, H. Li, W. Cong, G. Wang, W. Yang, C. Qin, and M. Xu, “Spectrally resolved bioluminescence tomography with adaptive finite element: methodology and simulation,” Phys. Med. Biol. 52, 1–16 (2007).

[CrossRef]

Y. Lv, J. Tian, W. Cong, G. Wang, J. Luo, W. Yang, and H. Li, “A multilevel adaptive finite element algorithm for bioluminescence tomography,” Opt. Express 14, 8211–8223 (2006), http://www.opticsinfobase.org/abstract.cfm?URI=oe-14-18-8211.

[CrossRef]
[PubMed]

Y. Lu, A. Douraghy, H. B. Machado, D. Stout, J. Tian, H. Herschman, and A. F. Chatziioannou, “Spectrally-resolved bioluminescence tomography with the third-order simplified spherical harmonics approximation. Physics in Medicine and Biology,” 59, 6477–6493 (2009).

D. W. Marquardt, “An algorithm for least-squares estimation of nonlinear parameters,” SIAM J. Appl. Math. 11, 431–441 (1963).

[CrossRef]

V. Ntziachristos, J. Ripoll, L. H. V. Wang, and R. Weissleder, “Looking and listening to light: the evolution of whole-body photonic imaging,” Nature Biotechnol. 23, 313–320 (2005).

[CrossRef]

R. Schultz, J. Ripoll, and V. Ntziachristos, “Experimental fluorescence tomography of tissues with noncontact measurements,” IEEE Trans. Med. Imag. 23, 492–500 (2004).

[CrossRef]

R. Weissleder and V. Ntziachristos, “Shedding light onto live molecular targets,” Nature Medicine 9, 123–128 (2003).

[CrossRef]
[PubMed]

V. Ntziachristos, C. Tung, C. Bremer, and R. Weissleder, “Fluorescence molecular tomography resolves protease activity in vivo,” Nat. Med. 8, 757–760 (2002).

[CrossRef]
[PubMed]

R. Weissleder and M. J. Pittet, “Imaging in the era of molecular oncology,” Nature 452, 580–589 (2008).

[CrossRef]
[PubMed]

H. Dehghani, S. C. Davis, and B. W. Pogue, “Spectrally resolved bioluminescence tomography using the reciprocity approach,” Medical Physics 35, 4863–4871 (2008).

[CrossRef]
[PubMed]

M. J. D. Powell, “A new algorithm for unconstrained optimization,” in Nonlinear Programming, J. B. Rosen, O. L. Mangasarian, and K. Ritter, eds. (Academic Press, New York, 1970), 31–65.

M. J. D. Powell, “Convergence properties of a class of minimization algorithms,” in Nonlinear Programming, O. L. Mangasarian, R. R. Meyer, and S. M. Robinson, eds. (Academic Press, New York, 1975), 1–27.

C. Qin, J. Tian, X. Yang, J. Feng, K. Liu, J. Liu, G. Yan, S. Zhu, and M. Xu, “Adaptive improved element free Galerkin method for quasi or multi spectral bioluminescence tomography,” Opt. Express 17, 21925–21934 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-24-21925.

[CrossRef]
[PubMed]

J. Feng, K. Jia, C. Qin, G. Yan, S. Zhu, X. Zhang, J. Liu, and J. Tian, “Three-dimensional Bioluminescence Tomography based on Bayesian Approach,” Opt. Express 17, 16834–16848 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-19-16834.

[CrossRef]
[PubMed]

J. Feng, K. Jia, G. Yan, S. Zhu, C. Qin, Y. Lv, and J. Tian, “An optimal permissible source region strategy for multispectral bioluminescence tomography,” Opt. Express 16, 15640–15654 (2008), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-16-20-15640.

[CrossRef]
[PubMed]

Y. Lv, J. Tian, H. Li, W. Cong, G. Wang, W. Yang, C. Qin, and M. Xu, “Spectrally resolved bioluminescence tomography with adaptive finite element: methodology and simulation,” Phys. Med. Biol. 52, 1–16 (2007).

[CrossRef]

D. Qin, H. Zhao, Y. Tanikawa, and F. Gao, “Experimental determination of optical properties in turbid medium by TCSPC technique,” Proc. SPIE 6434, 64342E (2007).

[CrossRef]

G. Alexandrakis, F. R. Rannou, and A. F. Chatziioannou, “Tomographic bioluminescence imaging by use of a combined optical-PET (OPET) system: a computer simulation feasibility study,” Phys. Med. Biol. 50, 4225–4241 (2005).

[CrossRef]
[PubMed]

M. K. So, C. J. Xu, A. M. Loening, S. S. Gambhir, and J. H. Rao, “Self-illuminating quantum dot conjugates for in vivo imaging,” Nature Biotechnol. 24, 339–343 (2006).

[CrossRef]

S. S. Rao, The finite element method in engineering (Butterworth-Heinemann, Boston, 1999).

V. Ntziachristos, J. Ripoll, L. H. V. Wang, and R. Weissleder, “Looking and listening to light: the evolution of whole-body photonic imaging,” Nature Biotechnol. 23, 313–320 (2005).

[CrossRef]

R. Schultz, J. Ripoll, and V. Ntziachristos, “Experimental fluorescence tomography of tissues with noncontact measurements,” IEEE Trans. Med. Imag. 23, 492–500 (2004).

[CrossRef]

R. Schultz, J. Ripoll, and V. Ntziachristos, “Experimental fluorescence tomography of tissues with noncontact measurements,” IEEE Trans. Med. Imag. 23, 492–500 (2004).

[CrossRef]

M. Schweiger, S. R. Arridge, M. Hiraoka, and D. T. Delpy, “The finite element method for the propagation of light in scattering media: Boundary and source conditions,” Med. Phys. 22, 1779–1792 (1995).

[CrossRef]
[PubMed]

S. R. Arridge, M. Schweiger, M. Hiraoka, and D. T. Delpy, “A finite element approach for modeling photon transport in tissue,” Med. Phys. 20, 299–309 (1993).

[CrossRef]
[PubMed]

M. K. So, C. J. Xu, A. M. Loening, S. S. Gambhir, and J. H. Rao, “Self-illuminating quantum dot conjugates for in vivo imaging,” Nature Biotechnol. 24, 339–343 (2006).

[CrossRef]

V. Soloviev, “Tomographic bioluminescence imaging with varying boundary conditions,” Applied Optics 46, 2778–2784 (2007).

[CrossRef]
[PubMed]

Y. Lu, A. Douraghy, H. B. Machado, D. Stout, J. Tian, H. Herschman, and A. F. Chatziioannou, “Spectrally-resolved bioluminescence tomography with the third-order simplified spherical harmonics approximation. Physics in Medicine and Biology,” 59, 6477–6493 (2009).

Y. Lu, X. Zhang, A. Douraghy, D. Stout, J. Tian, T. F. Chan, and A. F. Chatziioannou, “Source Reconstruction for spectrally-resolved bioluminescence tomography with sparse a priori information,” Opt. Express 17, 8062–8080 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-10-8062.

[CrossRef]
[PubMed]

B. Zhang, J. Tian, D. Liu, L. Sun, X. Yang, and D. Han, “A multithread based new sparse matrix method in bioluminescence tomography”, presented at Conference 7626 of SPIE on Medical Imaging, San Diego, USA, 13–18 February 2010.

W. Sun and Y.x. Yuan, “Chapter 6 Trust-Region Methods and Conic Model Methods” in Optimization Theory and Methods: Nonlinear Programming (Springer US, 2006).

D. Qin, H. Zhao, Y. Tanikawa, and F. Gao, “Experimental determination of optical properties in turbid medium by TCSPC technique,” Proc. SPIE 6434, 64342E (2007).

[CrossRef]

B. Zhang, J. Tian, D. Liu, L. Sun, X. Yang, and D. Han, “A multithread based new sparse matrix method in bioluminescence tomography”, presented at Conference 7626 of SPIE on Medical Imaging, San Diego, USA, 13–18 February 2010.

Y. Lu, X. Zhang, A. Douraghy, D. Stout, J. Tian, T. F. Chan, and A. F. Chatziioannou, “Source Reconstruction for spectrally-resolved bioluminescence tomography with sparse a priori information,” Opt. Express 17, 8062–8080 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-10-8062.

[CrossRef]
[PubMed]

J. Feng, K. Jia, C. Qin, G. Yan, S. Zhu, X. Zhang, J. Liu, and J. Tian, “Three-dimensional Bioluminescence Tomography based on Bayesian Approach,” Opt. Express 17, 16834–16848 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-19-16834.

[CrossRef]
[PubMed]

Y. Lu, A. Douraghy, H. B. Machado, D. Stout, J. Tian, H. Herschman, and A. F. Chatziioannou, “Spectrally-resolved bioluminescence tomography with the third-order simplified spherical harmonics approximation. Physics in Medicine and Biology,” 59, 6477–6493 (2009).

C. Qin, J. Tian, X. Yang, J. Feng, K. Liu, J. Liu, G. Yan, S. Zhu, and M. Xu, “Adaptive improved element free Galerkin method for quasi or multi spectral bioluminescence tomography,” Opt. Express 17, 21925–21934 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-24-21925.

[CrossRef]
[PubMed]

J. Feng, K. Jia, G. Yan, S. Zhu, C. Qin, Y. Lv, and J. Tian, “An optimal permissible source region strategy for multispectral bioluminescence tomography,” Opt. Express 16, 15640–15654 (2008), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-16-20-15640.

[CrossRef]
[PubMed]

J. Tian, J. Bai, X.-P. Yan, S. Bao, Y. Li, W. Liang, and X. Yang, “Multimodality molecular imaging,” IEEE Eng. Med. Bio. Mag. 27, 48–57 (2008).

[CrossRef]

Y. Lv, J. Tian, H. Li, W. Cong, G. Wang, W. Yang, C. Qin, and M. Xu, “Spectrally resolved bioluminescence tomography with adaptive finite element: methodology and simulation,” Phys. Med. Biol. 52, 1–16 (2007).

[CrossRef]

Y. Lv, J. Tian, W. Cong, G. Wang, J. Luo, W. Yang, and H. Li, “A multilevel adaptive finite element algorithm for bioluminescence tomography,” Opt. Express 14, 8211–8223 (2006), http://www.opticsinfobase.org/abstract.cfm?URI=oe-14-18-8211.

[CrossRef]
[PubMed]

H. Li, J. Tian, F. Zhu, W. Cong, L. V. Wang, E. A. Hoffman, and G. Wang, “A mouse optical simulation enviroment (MOSE) to investigate bioluminescent phenomena in the living mouse with the Monte Carlo Method,” Acad. Radiol. 11, 1029–1038 (2004).

[CrossRef]
[PubMed]

V. Ntziachristos, C. Tung, C. Bremer, and R. Weissleder, “Fluorescence molecular tomography resolves protease activity in vivo,” Nat. Med. 8, 757–760 (2002).

[CrossRef]
[PubMed]

Y. Lv, J. Tian, H. Li, W. Cong, G. Wang, W. Yang, C. Qin, and M. Xu, “Spectrally resolved bioluminescence tomography with adaptive finite element: methodology and simulation,” Phys. Med. Biol. 52, 1–16 (2007).

[CrossRef]

W. M. Han, W. X. Cong, and G. Wang, “Mathematical theory and numerical analysis of bioluminescence tomography,” Inverse Problems 22, 1659–1675 (2006).

[CrossRef]

Y. Lv, J. Tian, W. Cong, G. Wang, J. Luo, W. Yang, and H. Li, “A multilevel adaptive finite element algorithm for bioluminescence tomography,” Opt. Express 14, 8211–8223 (2006), http://www.opticsinfobase.org/abstract.cfm?URI=oe-14-18-8211.

[CrossRef]
[PubMed]

W. Cong, D. Kumar, Y. Liu, A. Cong, and G. Wang, “A practical method to determine the light source distribution in bioluminescent imaging,” Proc. SPIE 5535, 679–686 (2004).

[CrossRef]

H. Li, J. Tian, F. Zhu, W. Cong, L. V. Wang, E. A. Hoffman, and G. Wang, “A mouse optical simulation enviroment (MOSE) to investigate bioluminescent phenomena in the living mouse with the Monte Carlo Method,” Acad. Radiol. 11, 1029–1038 (2004).

[CrossRef]
[PubMed]

L. H. Wang, S. L. Jacques, and L. Q. Zheng, “MCML-Monte Carlo modeling of photon transport in multi-layered tissues,” Comput. Meth. Prog. Biomed. 47, 131–146 (1995).

[CrossRef]

V. Ntziachristos, J. Ripoll, L. H. V. Wang, and R. Weissleder, “Looking and listening to light: the evolution of whole-body photonic imaging,” Nature Biotechnol. 23, 313–320 (2005).

[CrossRef]

H. Li, J. Tian, F. Zhu, W. Cong, L. V. Wang, E. A. Hoffman, and G. Wang, “A mouse optical simulation enviroment (MOSE) to investigate bioluminescent phenomena in the living mouse with the Monte Carlo Method,” Acad. Radiol. 11, 1029–1038 (2004).

[CrossRef]
[PubMed]

Y. Wang and Y. Yuan, “Convergence and regularity of trust region methods for nonlinear ill-posed inverse problems,” Inverse Problems 21, 821–838, (2005).

[CrossRef]

R. Weissleder and M. J. Pittet, “Imaging in the era of molecular oncology,” Nature 452, 580–589 (2008).

[CrossRef]
[PubMed]

V. Ntziachristos, J. Ripoll, L. H. V. Wang, and R. Weissleder, “Looking and listening to light: the evolution of whole-body photonic imaging,” Nature Biotechnol. 23, 313–320 (2005).

[CrossRef]

R. Weissleder and V. Ntziachristos, “Shedding light onto live molecular targets,” Nature Medicine 9, 123–128 (2003).

[CrossRef]
[PubMed]

V. Ntziachristos, C. Tung, C. Bremer, and R. Weissleder, “Fluorescence molecular tomography resolves protease activity in vivo,” Nat. Med. 8, 757–760 (2002).

[CrossRef]
[PubMed]

J. K. Willmann, N. van Bruggen, L. M. Dinkelborg, and S. S. Gambhir, “Molecular imaging in drug development,” Nat. Rev. Drug Discov. 7, 591–607 (2008).

[CrossRef]
[PubMed]

M. K. So, C. J. Xu, A. M. Loening, S. S. Gambhir, and J. H. Rao, “Self-illuminating quantum dot conjugates for in vivo imaging,” Nature Biotechnol. 24, 339–343 (2006).

[CrossRef]

C. Qin, J. Tian, X. Yang, J. Feng, K. Liu, J. Liu, G. Yan, S. Zhu, and M. Xu, “Adaptive improved element free Galerkin method for quasi or multi spectral bioluminescence tomography,” Opt. Express 17, 21925–21934 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-24-21925.

[CrossRef]
[PubMed]

Y. Lv, J. Tian, H. Li, W. Cong, G. Wang, W. Yang, C. Qin, and M. Xu, “Spectrally resolved bioluminescence tomography with adaptive finite element: methodology and simulation,” Phys. Med. Biol. 52, 1–16 (2007).

[CrossRef]

J. Feng, K. Jia, C. Qin, G. Yan, S. Zhu, X. Zhang, J. Liu, and J. Tian, “Three-dimensional Bioluminescence Tomography based on Bayesian Approach,” Opt. Express 17, 16834–16848 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-19-16834.

[CrossRef]
[PubMed]

C. Qin, J. Tian, X. Yang, J. Feng, K. Liu, J. Liu, G. Yan, S. Zhu, and M. Xu, “Adaptive improved element free Galerkin method for quasi or multi spectral bioluminescence tomography,” Opt. Express 17, 21925–21934 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-24-21925.

[CrossRef]
[PubMed]

J. Feng, K. Jia, G. Yan, S. Zhu, C. Qin, Y. Lv, and J. Tian, “An optimal permissible source region strategy for multispectral bioluminescence tomography,” Opt. Express 16, 15640–15654 (2008), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-16-20-15640.

[CrossRef]
[PubMed]

W. Gong, R. Li, N. N. Yan, and W.B. Zhao, “An improved error analysis for finite element approximation of bioluminescence tomography,” Journal of Computational Mathematics 26, 297–309 (2008).

J. Tian, J. Bai, X.-P. Yan, S. Bao, Y. Li, W. Liang, and X. Yang, “Multimodality molecular imaging,” IEEE Eng. Med. Bio. Mag. 27, 48–57 (2008).

[CrossRef]

Y. Lv, J. Tian, H. Li, W. Cong, G. Wang, W. Yang, C. Qin, and M. Xu, “Spectrally resolved bioluminescence tomography with adaptive finite element: methodology and simulation,” Phys. Med. Biol. 52, 1–16 (2007).

[CrossRef]

Y. Lv, J. Tian, W. Cong, G. Wang, J. Luo, W. Yang, and H. Li, “A multilevel adaptive finite element algorithm for bioluminescence tomography,” Opt. Express 14, 8211–8223 (2006), http://www.opticsinfobase.org/abstract.cfm?URI=oe-14-18-8211.

[CrossRef]
[PubMed]

B. Zhang, J. Tian, D. Liu, L. Sun, X. Yang, and D. Han, “A multithread based new sparse matrix method in bioluminescence tomography”, presented at Conference 7626 of SPIE on Medical Imaging, San Diego, USA, 13–18 February 2010.

C. Qin, J. Tian, X. Yang, J. Feng, K. Liu, J. Liu, G. Yan, S. Zhu, and M. Xu, “Adaptive improved element free Galerkin method for quasi or multi spectral bioluminescence tomography,” Opt. Express 17, 21925–21934 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-24-21925.

[CrossRef]
[PubMed]

J. Tian, J. Bai, X.-P. Yan, S. Bao, Y. Li, W. Liang, and X. Yang, “Multimodality molecular imaging,” IEEE Eng. Med. Bio. Mag. 27, 48–57 (2008).

[CrossRef]

Y. Wang and Y. Yuan, “Convergence and regularity of trust region methods for nonlinear ill-posed inverse problems,” Inverse Problems 21, 821–838, (2005).

[CrossRef]

W. Sun and Y.x. Yuan, “Chapter 6 Trust-Region Methods and Conic Model Methods” in Optimization Theory and Methods: Nonlinear Programming (Springer US, 2006).

B. Zhang, J. Tian, D. Liu, L. Sun, X. Yang, and D. Han, “A multithread based new sparse matrix method in bioluminescence tomography”, presented at Conference 7626 of SPIE on Medical Imaging, San Diego, USA, 13–18 February 2010.

Y. Lu, X. Zhang, A. Douraghy, D. Stout, J. Tian, T. F. Chan, and A. F. Chatziioannou, “Source Reconstruction for spectrally-resolved bioluminescence tomography with sparse a priori information,” Opt. Express 17, 8062–8080 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-10-8062.

[CrossRef]
[PubMed]

J. Feng, K. Jia, C. Qin, G. Yan, S. Zhu, X. Zhang, J. Liu, and J. Tian, “Three-dimensional Bioluminescence Tomography based on Bayesian Approach,” Opt. Express 17, 16834–16848 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-19-16834.

[CrossRef]
[PubMed]

D. Qin, H. Zhao, Y. Tanikawa, and F. Gao, “Experimental determination of optical properties in turbid medium by TCSPC technique,” Proc. SPIE 6434, 64342E (2007).

[CrossRef]

W. Gong, R. Li, N. N. Yan, and W.B. Zhao, “An improved error analysis for finite element approximation of bioluminescence tomography,” Journal of Computational Mathematics 26, 297–309 (2008).

L. H. Wang, S. L. Jacques, and L. Q. Zheng, “MCML-Monte Carlo modeling of photon transport in multi-layered tissues,” Comput. Meth. Prog. Biomed. 47, 131–146 (1995).

[CrossRef]

H. Li, J. Tian, F. Zhu, W. Cong, L. V. Wang, E. A. Hoffman, and G. Wang, “A mouse optical simulation enviroment (MOSE) to investigate bioluminescent phenomena in the living mouse with the Monte Carlo Method,” Acad. Radiol. 11, 1029–1038 (2004).

[CrossRef]
[PubMed]

C. Qin, J. Tian, X. Yang, J. Feng, K. Liu, J. Liu, G. Yan, S. Zhu, and M. Xu, “Adaptive improved element free Galerkin method for quasi or multi spectral bioluminescence tomography,” Opt. Express 17, 21925–21934 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-24-21925.

[CrossRef]
[PubMed]

J. Feng, K. Jia, C. Qin, G. Yan, S. Zhu, X. Zhang, J. Liu, and J. Tian, “Three-dimensional Bioluminescence Tomography based on Bayesian Approach,” Opt. Express 17, 16834–16848 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-19-16834.

[CrossRef]
[PubMed]

J. Feng, K. Jia, G. Yan, S. Zhu, C. Qin, Y. Lv, and J. Tian, “An optimal permissible source region strategy for multispectral bioluminescence tomography,” Opt. Express 16, 15640–15654 (2008), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-16-20-15640.

[CrossRef]
[PubMed]

H. Li, J. Tian, F. Zhu, W. Cong, L. V. Wang, E. A. Hoffman, and G. Wang, “A mouse optical simulation enviroment (MOSE) to investigate bioluminescent phenomena in the living mouse with the Monte Carlo Method,” Acad. Radiol. 11, 1029–1038 (2004).

[CrossRef]
[PubMed]

C. Contag and M. H. Bachmann, “Advances in Bioluminescence imaging of gene expression,” Annu. Rev. Biomed. Eng. 4, 235–260 (2002).

[CrossRef]
[PubMed]

V. Soloviev, “Tomographic bioluminescence imaging with varying boundary conditions,” Applied Optics 46, 2778–2784 (2007).

[CrossRef]
[PubMed]

L. H. Wang, S. L. Jacques, and L. Q. Zheng, “MCML-Monte Carlo modeling of photon transport in multi-layered tissues,” Comput. Meth. Prog. Biomed. 47, 131–146 (1995).

[CrossRef]

J. Tian, J. Bai, X.-P. Yan, S. Bao, Y. Li, W. Liang, and X. Yang, “Multimodality molecular imaging,” IEEE Eng. Med. Bio. Mag. 27, 48–57 (2008).

[CrossRef]

R. Schultz, J. Ripoll, and V. Ntziachristos, “Experimental fluorescence tomography of tissues with noncontact measurements,” IEEE Trans. Med. Imag. 23, 492–500 (2004).

[CrossRef]

Y. Wang and Y. Yuan, “Convergence and regularity of trust region methods for nonlinear ill-posed inverse problems,” Inverse Problems 21, 821–838, (2005).

[CrossRef]

W. M. Han, W. X. Cong, and G. Wang, “Mathematical theory and numerical analysis of bioluminescence tomography,” Inverse Problems 22, 1659–1675 (2006).

[CrossRef]

W. Gong, R. Li, N. N. Yan, and W.B. Zhao, “An improved error analysis for finite element approximation of bioluminescence tomography,” Journal of Computational Mathematics 26, 297–309 (2008).

X. L. Cheng, R. F. Gong, and W. M. Han, “Numerical approximation of bioluminescence tomography based on a new formulation,” Journal of Engineering Mathematics 63, 121–133 (2009).

[CrossRef]

S. R. Arridge, M. Schweiger, M. Hiraoka, and D. T. Delpy, “A finite element approach for modeling photon transport in tissue,” Med. Phys. 20, 299–309 (1993).

[CrossRef]
[PubMed]

M. Schweiger, S. R. Arridge, M. Hiraoka, and D. T. Delpy, “The finite element method for the propagation of light in scattering media: Boundary and source conditions,” Med. Phys. 22, 1779–1792 (1995).

[CrossRef]
[PubMed]

H. Dehghani, S. C. Davis, and B. W. Pogue, “Spectrally resolved bioluminescence tomography using the reciprocity approach,” Medical Physics 35, 4863–4871 (2008).

[CrossRef]
[PubMed]

V. Ntziachristos, C. Tung, C. Bremer, and R. Weissleder, “Fluorescence molecular tomography resolves protease activity in vivo,” Nat. Med. 8, 757–760 (2002).

[CrossRef]
[PubMed]

J. K. Willmann, N. van Bruggen, L. M. Dinkelborg, and S. S. Gambhir, “Molecular imaging in drug development,” Nat. Rev. Drug Discov. 7, 591–607 (2008).

[CrossRef]
[PubMed]

R. Weissleder and M. J. Pittet, “Imaging in the era of molecular oncology,” Nature 452, 580–589 (2008).

[CrossRef]
[PubMed]

V. Ntziachristos, J. Ripoll, L. H. V. Wang, and R. Weissleder, “Looking and listening to light: the evolution of whole-body photonic imaging,” Nature Biotechnol. 23, 313–320 (2005).

[CrossRef]

M. K. So, C. J. Xu, A. M. Loening, S. S. Gambhir, and J. H. Rao, “Self-illuminating quantum dot conjugates for in vivo imaging,” Nature Biotechnol. 24, 339–343 (2006).

[CrossRef]

R. Weissleder and V. Ntziachristos, “Shedding light onto live molecular targets,” Nature Medicine 9, 123–128 (2003).

[CrossRef]
[PubMed]

Y. Lv, J. Tian, W. Cong, G. Wang, J. Luo, W. Yang, and H. Li, “A multilevel adaptive finite element algorithm for bioluminescence tomography,” Opt. Express 14, 8211–8223 (2006), http://www.opticsinfobase.org/abstract.cfm?URI=oe-14-18-8211.

[CrossRef]
[PubMed]

C. Qin, J. Tian, X. Yang, J. Feng, K. Liu, J. Liu, G. Yan, S. Zhu, and M. Xu, “Adaptive improved element free Galerkin method for quasi or multi spectral bioluminescence tomography,” Opt. Express 17, 21925–21934 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-24-21925.

[CrossRef]
[PubMed]

J. Feng, K. Jia, C. Qin, G. Yan, S. Zhu, X. Zhang, J. Liu, and J. Tian, “Three-dimensional Bioluminescence Tomography based on Bayesian Approach,” Opt. Express 17, 16834–16848 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-19-16834.

[CrossRef]
[PubMed]

Y. Lu, X. Zhang, A. Douraghy, D. Stout, J. Tian, T. F. Chan, and A. F. Chatziioannou, “Source Reconstruction for spectrally-resolved bioluminescence tomography with sparse a priori information,” Opt. Express 17, 8062–8080 (2009), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-17-10-8062.

[CrossRef]
[PubMed]

J. Feng, K. Jia, G. Yan, S. Zhu, C. Qin, Y. Lv, and J. Tian, “An optimal permissible source region strategy for multispectral bioluminescence tomography,” Opt. Express 16, 15640–15654 (2008), http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-16-20-15640.

[CrossRef]
[PubMed]

D. Boas, J. Culver, J. Stott, and A. Dunn, “Three dimensional Monte Carlo code for photon migration through complex heterogeneous media including the adult human head,” Opt. Express 10, 159–169 (2002), http://www.opticsinfobase.org/abstract.cfm?URI=OPEX-10-3-159.

[PubMed]

M. Chua and H. Dehghani, “Image reconstruction in diffuse optical tomography based on simplified spherical harmonics approximation,” Opt. Express 17, 24208–24223, (2009), http://www.opticsinfobase.org/abstract.cfm?URI=oe-17-26-24208.

[CrossRef]

Y. Lv, J. Tian, H. Li, W. Cong, G. Wang, W. Yang, C. Qin, and M. Xu, “Spectrally resolved bioluminescence tomography with adaptive finite element: methodology and simulation,” Phys. Med. Biol. 52, 1–16 (2007).

[CrossRef]

G. Alexandrakis, F. R. Rannou, and A. F. Chatziioannou, “Tomographic bioluminescence imaging by use of a combined optical-PET (OPET) system: a computer simulation feasibility study,” Phys. Med. Biol. 50, 4225–4241 (2005).

[CrossRef]
[PubMed]

B. Zhang, J. Tian, D. Liu, L. Sun, X. Yang, and D. Han, “A multithread based new sparse matrix method in bioluminescence tomography”, presented at Conference 7626 of SPIE on Medical Imaging, San Diego, USA, 13–18 February 2010.

W. Cong, D. Kumar, Y. Liu, A. Cong, and G. Wang, “A practical method to determine the light source distribution in bioluminescent imaging,” Proc. SPIE 5535, 679–686 (2004).

[CrossRef]

D. Qin, H. Zhao, Y. Tanikawa, and F. Gao, “Experimental determination of optical properties in turbid medium by TCSPC technique,” Proc. SPIE 6434, 64342E (2007).

[CrossRef]

K. Levenberg, “A method for the solution of certain nonlinear problems,” Quart. Appl. Math. 2, 164–168 (1944).

D. W. Marquardt, “An algorithm for least-squares estimation of nonlinear parameters,” SIAM J. Appl. Math. 11, 431–441 (1963).

[CrossRef]

M. J. D. Powell, “A new algorithm for unconstrained optimization,” in Nonlinear Programming, J. B. Rosen, O. L. Mangasarian, and K. Ritter, eds. (Academic Press, New York, 1970), 31–65.

M. J. D. Powell, “Convergence properties of a class of minimization algorithms,” in Nonlinear Programming, O. L. Mangasarian, R. R. Meyer, and S. M. Robinson, eds. (Academic Press, New York, 1975), 1–27.

J. J. Duderstadt and L. J. Hamilton, Nuclear Reactor analysis (Wiley, New York, 1976).

S. S. Rao, The finite element method in engineering (Butterworth-Heinemann, Boston, 1999).

W. Sun and Y.x. Yuan, “Chapter 6 Trust-Region Methods and Conic Model Methods” in Optimization Theory and Methods: Nonlinear Programming (Springer US, 2006).

V. Isakov, Inverse Problems for Partial Differential Equations (Springer-Verlag, New York, 1998).

Y. Lu, A. Douraghy, H. B. Machado, D. Stout, J. Tian, H. Herschman, and A. F. Chatziioannou, “Spectrally-resolved bioluminescence tomography with the third-order simplified spherical harmonics approximation. Physics in Medicine and Biology,” 59, 6477–6493 (2009).