Mesh-based Monte Carlo method using fast raytracing in plücker coordinates

Biomedical Optics Express

Volumn 1, Issue 1, 2010, Pages 165-175

  Fang, Qianqian ^a  

^a MASSACHUSETTS GENERAL HOSPITAL   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

PROGRAM PROCESSORS; THREE DIMENSIONAL COMPUTER GRAPHICS;

BARYCENTRIC COORDINATES; COMPLEX MEDIA; CURVED BOUNDARY; DIFFUSION MODEL; DISCRETIZATIONS; FLUENCE DISTRIBUTION; GRAPHICS PROCESSING UNIT; HIGH ORDER ELEMENT; HUMAN BRAIN; INTERSECTION TEST; LAGRANGE BASIS; MEDIA PROPERTIES; MONTE CARLO; MULTI-THREADING; PHOTON MIGRATION; REFINED STRUCTURES; TIME RESOLVED IMAGING; TRACING TECHNIQUE;

MONTE CARLO METHODS;

EID: 79955434206     PISSN: None     EISSN: 21567085     Source Type: Journal    
DOI: 10.1364/BOE.1.000165     Document Type: Article

References (40)

1. B.C. Wilson, and G. Adam, A Monte Carlo model for the absorption and flux distributions of light in tissue, Med. Phys. 10(6), 824-830 (1983).
2. P. van der Zee, and D. T. Delpy, Simulation of the point spread function for light in tissue by a Monte Carlo method, in Oxygen Transport to Tissue I. A. Silver and A. Silver, eds. (Plenum, New York,), Vol. IX. (1987)
3. Y. Hasegawa, Y. Yamada, M. Tamura, and Y. Nomura, Monte Carlo simulation of light transmission through living tissues, Appl. Opt. 30(31), 4515-4520 (1991).
4. M. Hiraoka, M. Firbank, M. Essenpreis, M. Cope, S. R. Arridge, P. van der Zee, and D. T. Delpy, A Monte Carlo investigation of optical pathlength in inhomogeneous tissue and its application to near-infrared spectroscopy, Phys. Med. Biol. 38(12), 1859-1876 (1993).
5. L. H. Wang, S. L. Jacques, and L. Q. Zheng, MCML-Monte Carlo modeling of light transport in multilayered tissues, Comput. Meth. Prog. Bio. 47(2), 131-146 (1995).
6. J. Ripoll, M. Nieto-Vesperinas, S. R. Arridge, and H. Dehghani, Boundary conditions for light propagation in diffusive media with nonscattering regions, J. Opt. Soc. Am. A 17(9), 1671-1681 (2000).
7. S. R. Arridge, H. Dehghani, M. Schweiger, and E. Okada, The finite element model for the propagation of light in scattering media: a direct method for domains with nonscattering regions, Med. Phys. 27(1), 252-264 (2000).
8. F. Martelli, D. Contini, A. Taddeucci, and G. Zaccanti, Photon migration through a turbid slab described by a model based on diffusion approximation. II. Comparison with Monte Carlo results, Appl. Opt. 36(19), 4600-4612 (1997).
9. Y. Xu, Q. Zhang, and H. Jiang, Optical image reconstruction of non-scattering and low scattering heterogeneities in turbid media based on the diffusion approximation model, J. Opt. A, Pure Appl. Opt. 6(1), 29-35 (2004).
10. A. H. Hielscher, R. E. Alcouffe, and R. L. Barbour, Comparison of finite-difference transport and diffusion calculations for photon migration in homogeneous and heterogeneous tissues, Phys. Med. Biol. 43(5), 1285-1302 (1998).
11. A. Custo, W. M. Wells 3rd, A. H. Barnett, E. M. Hillman, and D. A. Boas, Effective scattering coefficient of the cerebral spinal fluid in adult head models for diffuse optical imaging, Appl. Opt. 45(19), 4747-1755 (2006).
12. G. Ma, J. F. Delorme, P. Gallant, and D. A. Boas, Comparison of simplified Monte Carlo simulation and diffusion approximation for the fluorescence signal from phantoms with typical mouse tissue optical properties, Appl. Opt. 46(10), 1686-1692 (2007).
13. D. R. Kirkby, and D. T. Delpy, Parallel operation of Monte Carlo simulations on a diverse network of computers, Phys. Med. Biol. 42(6), 1203-1208 (1997).
14. A. Colasanti, G. Guida, A. Kisslinger, R. Iiuzzi, M. Quarto, P. Riccio, G. Roberti, and F. Villani, Multiple processor version of a Monte Carlo code for photon transport in turbid media, Comput. Phys. Commun. 132(1-2), 84-93 (2000).
15. S. R. Arridge, M. Schweiger, M. Hiraoka, and D. T. Delpy, A finite element approach for modeling photon transport in tissue, Med. Phys. 20(2 Pt 1), 299-309 (1993).
16. K. Ren, G. S. Abdoulaev, G. Bal, and A. H. Hielscher, Algorithm for solving the equation of radiative transfer in the frequency domain, Opt. Lett. 29(6), 578-580 (2004).
17. CGAL, Computational Geometry Algorithms Library, URL: http://www.cgal.org
18. Q Fang, and D. Boas, Tetrahedral mesh generation from volumetric binary and gray-scale images, Proceedings of IEEE International Symposium on Biomédical Imaging 2009,1142-1145 (2009).
19. T. Binzoni, T. S. Leung, R. Giust, D. Riifenacht, and A. H. Gandjbakhche, Light transport in tissue by 3D Monte Carlo: influence of boundary voxelization, Comput. Methods Programs Biomed. 89(1), 14-23 (2008).
20. D. A. Boas, J. P. Culver, J. J. Stott, and A. K. Dunn, Three dimensional Monte Carlo code for photon migration through complex heterogeneous media including the adult human head, Opt. Express 10(3), 159-170 (2002).
21. E. Alerstam, T. Svensson, and S. Andersson-Engels, Parallel computing with graphics processing units for highspeed Monte Carlo simulation of photon migration, J. Biomed. Opt. 13(6), 060504 (2008).
22. Q. Fang, and D. A. Boas, Monte Carlo simulation of photon migration in 3D turbid media accelerated by graphics processing units, Opt. Express 17(22), 20178-20190 (2009).
23. Y. Fukui, Y. Ajichi, and E. Okada, Monte Carlo prediction of near-infrared light propagation in realistic adult and neonatal head models, Appl. Opt. 42(16), 2881-2887 (2003).
24. E. Margallo-Balbás, and P. J. French, Shape based Monte Carlo code for light transport in complex heterogeneous Tissues, Opt. Express 15(21), 14086-14098 (2007).
25. N. Ren, J. Liang, X. Qu, J. Li, B. Lu, and J. Tian, GPU-based Monte Carlo simulation for light propagation in complex heterogeneous tissues, Opt. Express 18(7), 6811-6823 (2010).
26. N. Platis, and T. Theoharis, Fast ray-tetrahedron intersection using Pliicker coordinates, Journal of Graphics Tools 8(4), 37-48 (2003).
27. H.S.M. Coxeter, Non-Euclidean geometry, Univ. Toronto Press pp. 88-90 (1965)
28. Q. Fang, Mesh-based Monte Carlo-the software, URL: http://mcx.sourceforge.net/mmc/
29. H. Shen, and G. Wang, A tetrahedron-based inhomogeneous Monte Carlo optical simulator, Phys. Med. Biol. 55(4), 947-962 (2010).
30. M. Meyer, H. Lee, A. Barr, and M. Desbrun, Generalized Barycentric Coordinates on Irregular Polygons, Journal of Graphics Tools 7(1), 13-22 (2002).
31. C. A. Felippa, Advanced Finite Element Methods, URL: http://www.colorado.edU/engineering/cas/courses.d/AFEM.d/
32. Open MP Architecture Review Board, OpenMP Application Program Interface, Version 3.0, URL: http://www.openmp.org/mp-documents/spec30.pdf (2008)
33. NVIDIA, CUDA Compute Unified Device Architecture-Programming Guide, Version 3.0 (2010)
34. Khronos Group, OpenCL 1.0 Specification, URL: http://www.khronos.org/opencl/ (2008)
35. H. Si, and K. Gaertner, Meshing piecewise linear complexes by constrained Delaunay tetrahedralizations, In Proc. of the 14th Int. Meshing Roundtable, pp. 147-163, (2005)
36. P. Fleischmann, B. Haindl, R. Kosik, and S. Selberherr, Investigation of a mesh criterion for three-dimensional finite element diffusion simulation, Proc. Int. Conf. Simulation Semiconductor Processes Devices (SISPAD '99). 71-74 (1999)
37. D. A. Boas, M. A. O'Leary, B. Chance, and A. G. Yodh, Scattering of diffuse photon density waves by spherical inhomogeneities within turbid media: analytic solution and applications, Proc. Natl. Acad. Sci. U.S.A. 91(11), 4887-1891 (1994).
38. D.L. Collins, A. P. Zijdenbos, V. Kollokian, J. G. Sled, N. J. Kabani, C. J. Holmes, and A. C. Evans, Design and construction of a realistic digital brain phantom, IEEE Trans. Med. Imaging 17(3), 463-168 (1998).
39. J. Vollmer, R. Mencel, and H. Miiller, Improved Laplacian smoothing of noisy surface meshes, In Proc, EuroGraphics 99, 131-138 (1999).
40. A. N. Yaroslavsky, P. C. Schulze, I. V. Yaroslavsky, R. Schober, F. Ulrich, and H.-J. Schwarzmaier, Optical properties of selected native and coagulated human brain tissues in vitro in the visible and near infrared spectral range, Phys. Med. Biol. 47(12), 2059-2073 (2002).