A.F. Oskooi, D. Roundy, M. Ibanescu, P. Bermel, J.D. Joannopoulos and S.G. Johnson, ``MEEP: A flexible free-software package for electromagnetic simulations by the FDTD method,'' Computer Physics Communications, in press (2009).

A.F. Oskooi, C. Kottke and S.G. Johnson, ``Accurate finite-difference time-domain simulation of anisotropic media by subpixel smoothing,'' Optics Letters 34, pp. 2778-2780 (2009).

P.-R. Loh, A. F. Oskooi, M. Ibanescu, M. Skorobogatiy and S.G. Johnson, ``A fundamental relation between phase and group velocity, and application to failure of PML in backward-wave structures,'' Physical Review E 79, 065601 (2009).

A. Mutapcic, S. Boyd, A. Farjadpour, S. Johnson, Y. Avniel, ``Robust design of slow-light tapers in periodic waveguides,'' Engineering Optimization, 41 (4), pp. 365-384 (2009).

A.F. Oskooi, J.D. Joannopoulos and S.G. Johnson, ``Zero--group-velocity modes in chalcogenide holey photonic-crystal fibers,'' Optics Express 17, pp. 10082-10090 (2009).

A.F. Oskooi, L. Zhang, Y. Avniel and S.G. Johnson, ``The failure of perfectly matched layers, and towards their redemption by adiabatic absorbers,'' Optics Express 16, pp. 11376-11392 (2008).

L. Zhang, J.H. Lee, A. Farjadpour, J. White, S. Johnson, ``A novel boundary element method with surface conductivity for 3-D analysis of nanophotonics,'' Microwave Symposium Digest, IEEE MTT-S International, pp. 523-526 (2008)

K. K. Lee, A. Farjadpour, Y. Avniel, J. D. Joannopoulos, and S. G. Johnson, ``A tale of two limits: fundamental properties of photonic-crystal fibers,'' Proc. SPIE, vol. 6901, p. 69010K, January 2008. Invited paper

C. Kottke, A. Farjadpour, S.G. Johnson, ``Perturbation theory for anisotropic dielectric interfaces, and application to sub-pixel smoothing of discretized numerical methods,'' Physical Review E 77, 036611 (2008).

A. Farjadpour, D. Roundy, A. Rodriguez, M. Ibanescu, P. Bermel, J. D. Joannopoulos, S. G. Johnson, and G. W. Burr, ``Improving accuracy by subpixel smoothing in the finite-difference time domain,'' Optics Letters 31, pp. 2972-2974 (2006).

G. W. Burr and A. Farjadpour, ``Balancing accuracy against computation time: 3-D FDTD for nanophotonics device optimization,'' Proc. SPIE, vol. 5733, pp. 336-347, January 2005.