k-Wave Toolbox |

## Reference List

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Pseudospectral and k-space methods in acoustics Perfectly-matched layer Time-reversal photoacoustic image reconstruction FFT photoacoustic image reconstruction

### Pseudospectral and k-space methods in acoustics

Jaros, J., Rendell, A. P., and Treeby, B. E., "Full-wave nonlinear ultrasound simulation on distributed clusters with applications in high-intensity focused ultrasound," arXiv:1408.4675 [physics.med-ph], 2014. online pdf

Treeby, B. E., Jaros, J., Rendell, A. P., and Cox, B. T., "Modeling nonlinear ultrasound propagation in heterogeneous media with power law absorption using a k-space pseudospectral method," J. Acoust. Soc. Am., vol. 131, no. 6, pp. 4324-4336, 2012. online pdf

Wang, K., Teoh, E., Jaros, J., and Treeby, B. E., "Modelling Nonlinear Ultrasound Propagation in Absorbing Media using the k-Wave Toolbox: Experimental Validation," in IEEE International Ultrasonics Symposium, Dresden, Germany, pp. 523-526, 2012. online pdf

Treeby, B. E., Tumen, M. and Cox, B. T., "Time domain simulation of harmonic ultrasound images and beam patterns in 3D using the k-space pseudospectral method," MICCAI, Part I (Springer, Heidelberg), vol. 6891, pp. 363-370, 2011. online pdf

Treeby, B. E. and Cox, B. T., "A k-space Green's function solution for acoustic initial value problems in homogeneous media with power law absorption," J. Acoust. Soc. Am., vol. 129, no. 6, pp. 3652-3660, 2011. online pdf

Treeby, B. E. and Cox, B. T., "Modelling power law absorption and dispersion for acoustic propagation using the fractional Laplacian," J. Acoust. Soc. Am., vol. 127, no. 5, pp. 2741-2748, 2010. online pdf

Cox, B.T. and Treeby, B. E., "Effect of sensor directionality on photoacoustic imaging: a study using the k-Wave toolbox," Proc. of SPIE, vol. 7564, paper 75640I, 2010. online pdf

Treeby, B.E. and Cox, B.T. "k-Wave: MATLAB toolbox for the simulation and reconstruction of photoacoustic wave-fields" J. Biomed. Opt., vol. 15, no. 2, p. 021314, 2010. online pdf

Tillet, J. C., Daoud, M. I., Lacefield, J. C., and Waag, R. C., "A k-space method for acoustic propagation using coupled first-order equations in three dimensions," J. Acoust. Soc. Am., vol. 126, no. 3, pp. 1231-1244

Daoud, M. I. and Lacefield, J. C., "Distributed three-dimensional simulation of B-mode ultrasound imaging using a first-order k-space method," Phys. Med. Biol., vol. 54, pp. 5173-5192

Cox, B. T., Kara, S., Arridge, S. R., and Beard, P. C., "k-space propagation models for acoustically heterogeneous media: Application to biomedical photoacoustics," J. Acoust. Soc. Am., vol. 121, no. 6, pp. 3453-3464, 2007. online pdf

Cox, B. T. and Beard, P. C., "Fast calculation of pulsed photoacoustic fields in fluids using k-space methods," J. Acoust. Soc. Am., vol. 177, no. 6, pp. 3616-3627, 2005. online pdf

Tabei, M., Mast, T. D., and Waag, R. C., "A k-space method for coupled first-order acoustic propagation equations," J. Acoust. Soc. Am., vol. 111, no. 1, pp. 53-63, 2002.

Mast, T. D., Souriau, L. P., Liu, D. L. D., Tabei, M., Nachman, A. I., and Waag, R. C., "A k-space method for large-scale models of wave propagation in tissue," IEEE Trans. Ultrason. Ferroelectr. Freq. Control, vol. 48, no. 2, pp. 341-354, 2001.

Leeman, S., Healey, A. J., and Weight, J. P., "A New Approach for Calculating Wideband Fields", Acoustical Imaging, vol. 24, pp. 49-56, 2000.

Healey, A. J., Leeman, S., and Weight, J. P., "Space-time imaging of transient ultrasound fields", Int. J. Imaging Syst. Technol., vol. 8, no. 1, pp. 45-51, 1997.

Liu, Q. H. "Generalisation of the k-space formulation to elastodynamic scattering problems", J. Acoust. Soc. Am., vol. 97, pp. 1373-1379, 1995.

Finette, S., "Computational methods for simulating ultrasonic scattering in soft tissue", IEEE Trans. Ultrason. Ferroelectr. Freq. Control, vol. 34, no. 3, pp. 283-292, 1987.

Finette, S., "A computer model of acoustic wave scattering in soft tissue", IEEE Trans. Biomed. Eng., vol. BME-34, no. 5, pp. 336-344, 1987.

Compani-Tabrizi, B., "K-space scattering formulation of the absorptive full fluid elastic scalar wave equation in the time domain", J. Acoust. Soc. Am., vol. 79, pp. 901-905, 1986.

Bojarski, N. N., "The k-space formulation of the scattering problem in the time domain: An improved single propagator formulation," J. Acoust. Soc. Am., vol. 77, no. 3, pp. 826-831, 1985.

Bojarski, N. N., "The k-space formulation of the scattering problem in the time domain," J. Acoust. Soc. Am., vol. 72, no. 2, pp. 570-584, 1982.

Fornberg, B. and Whitham, G. B., "A Numerical and Theoretical Study of Certain Nonlinear Wave Phenomena", Philos. Trans. R. Soc. London A, vol. 289, no. 1361, pp. 373-404, 1978.

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### Perfectly-matched layer

Katsibas, T. K. and Antonopoulos, C. S., "A general form of perfectly matched layers for three-dimensional problems of acoustic scattering in lossless and lossy fluid media," IEEE Trans. Ultrason. Ferroelectr. Freq. Control, vol. 51, no. 8, pp. 964-972, 2004.

Yuan, X., Borup, D., Wiskin, J., Berggren, M., and Johnson, S. A., "Simulation of acoustic wave propagation in dispersive media with relaxation losses by using FDTD method with PML absorbing boundary condition," IEEE Trans. Ultrason. Ferroelectr. Freq. Control, vol. 46, no. 1, pp. 14-23, 1999.

Yuan, X., Borup, D., Wiskin, J. W., Berggren, M., Eidens, R., and Johnson, S. A., "Formulation and validation of Berenger's PML absorbing boundary for the FDTD simulation of acoustic scattering," IEEE Trans. Ultrason. Ferroelectr. Freq. Control, vol. 44, no. 4, pp. 816-822, 1997.

Berenger, J.-P., "Three-Dimensional Perfectly Matched Layer for the Absorption of Electromagnetic Waves," J. Comput. Phys., vol. 127, no. 2, pp. 363-379, 1996.

Berenger, J.-P., "A perfectly matched layer for the absorption of electromagnetic waves," J. Comput. Phys., vol. 114, no. 2, pp. 185-200, 1994.

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### Time-reversal photoacoustic image reconstruction

Treeby, B. E., Laufer, J. G., Zhang, E. Z., Norris, F. C., Lythgoe, M. F., Beard, P. C., and Cox, B. T., "Acoustic attenuation compensation in photoacoustic tomography: Application to high resolution 3D imaging of vascular networks in mice," In Proc. SPIE, vol. 7899, 2011. online pdf

Treeby, B. E., Zhang, E. Z. and Cox, B. T., "Photoacoustic tomography in absorbing acoustic media using time reversal," Inverse Probl., vol. 26, no. 11, 115003, 2010. online pdf

Cox, B. T. and Treeby, B. E., "Artifact Trapping During Time Reversal Photoacoustic Imaging for Acoustically Heterogeneous Media," IEEE Trans. Med. Imag., vol. 29, no. 2, p. 387-396, 2010. online pdf

Chen, G. and Zhao, Z., "Ultrasound tomography-guide TRM technique for breast tumour detecting in MITAT system," J. Electromagn. Waves Appl., vol. 24, no. 11-12, pp. 1459-1471, 2010.

Hristova, Y., "Time reversal in thermoacoustic tomography - an error estimate," Inverse Probl., no. 5, p. 055008, 2009.

Hristova, Y., Kuchment, P., and Nguyen, L. V., "Reconstruction and time reversal in thermoacoustic tomography in acoustically homogeneous and inhomogeneous media," Inverse Probl., vol. 24, no. 5, p. 055006, 2008.

Chen, G., Zhao, Z., Nie, Z., and Liu, Q., "Computational study of time reversal mirror technique for microwave-induced thermo-acoustic tomography," J. Electromagn. Waves Appl., vol. 22, no. 16, pp. 2191-2204, 2008.

Chen, G. P., Yu, W. B., Zhao, Z., Nie, Z., and Liu, Q., "The prototype of microwave-induced thermo-acoustic tomography imaging by time reversal mirror," J. Electromagn. Waves Appl., vol. 22, no. 11-12, pp. 1565-1574, 2008.

Burgholzer, P., Matt, G. J., Haltmeier, M., and Paltauf, G., "Exact and approximative imaging methods for photoacoustic tomography using an arbitrary detection surface," Phys. Rev. E, vol. 75, no. 4, p. 046706, 2007.

Grun, H., Paltauf, G., Haltmeier, M., and Burgholzer, P., "Photoacoustic tomography using a fiber based Fabry-Perot interferometer as an integrating line detector and image reconstruction by model-based time reversal method," Proc. of SPIE-OSA Biomedical Optics, vol. 6631, p. 663107, 2007.

Xu, Y. and Wang, L. V., "Time Reversal and Its Application to Tomography with Diffracting Sources," Phys. Rev. Lett., vol. 92, no. 3, p. 033902, 2004.

Finch, D., Patch, S. K. and Rakesh, "Determining a Function from Its Mean Values Over a Family of Spheres," SIAM J. Math. Anal., vol. 35, no. 5, p. 1213-1240, 2004.

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### FFT photoacoustic image reconstruction

Kostli, K. P. and Beard, P. C., "Two-Dimensional Photoacoustic Imaging by Use of Fourier-Transform Image Reconstruction and a Detector with an Anisotropic Response," Appl. Optics, vol. 42, no. 10, pp. 1899-1908, 2003.

Xu, Y., Feng, D., and Wang, L. V., "Exact frequency-domain reconstruction for thermoacoustic tomography. I. Planar geometry," IEEE Trans. Med. Imaging, vol. 21, no. 7, pp. 823-828, 2002.

Kostli, K. P., Frenz, M., Bebie, H., and Weber, H. P., "Temporal backward projection of optoacoustic pressure transients using Fourier transform methods," Phys. Med. Biol., vol. 46, no. 7, pp. 1863-1872, 2001.

Kostli, K. P., Frauchiger, D., Niederhauser, J. J., Paltauf, G., Weber, H. P., and Frenz, M., "Optoacoustic imaging using a three-dimensional reconstruction algorithm," IEEE J. Sel. Top. Quantum Electron., vol. 7, no. 6, pp. 918-923, 2001.

Norton, S. J. and Linzer, M., "Ultrasonic Reflectivity Imaging in Three Dimensions: Exact Inverse Scattering Solutions for Plane, Cylindrical, and Spherical Apertures," IEEE Trans. Biomed. Eng., vol. BME-28, no. 2, pp. 202-220, 1981.

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© 2009-2014 Bradley Treeby and Ben Cox.