JOURNAL PUBLICATIONS

[1] D. Yin, E.J. Lunt, M.I. Rudenko, D.W. Deamer, A.R. Hawkins, and H. Schmidt, "Planar optofluidic chip for single particle detection, manipulation, and analysis", Lab on Chip 7, 1171 (2007).

[2] D. Yin, E.J. Lunt, A. Barman, A.R. Hawkins, and H. Schmidt, "Microphotonic control of single molecule fluorescence correlation spectroscopy using planar optofluidics" Optics Express 15, 7290 (2007).

[3] P. Measor, L. Seballos, E.J. Lunt, D. Yin, J.Z. Zhang, A.R. Hawkins, and H. Schmidt, "On-chip Surface-enhanced Raman scattering (SERS) detection using integrated liquid-core waveguides", Appl. Phys. Lett. 90, 211107 (2007).

[4] JR Lee, JP Barber, Z George, ML Lee, H Schmidt, and AR Hawkins, "Microchannels with rectangular and arched core shapes fabricated using sacrificial etching", Journal of Micro/Nanolithography 2007, 6:013010.

[5] M.I. Rudenko, D. Yin, M. Holmes, A.R. Hawkins, and H. Schmidt, "Integration and characterization of SiN nanopores for single-molecule detection in liquid-core ARROW waveguides", Proceedings of the SPIE, 6444:64440L (2007).

[6] U. Hakanson, P. Measor, D. Yin, E. Lunt, A.R. Hawkins, V. Sandoghdar, and H. Schmidt, "Tailoring the transmission of liquid-core waveguides for wavelength filtering on a chip", Proceedings of the SPIE, 6477:647715 (2007).

[7] A.R. Hawkins, E.J. Lunt, M.R. Holmes, B.S. Phillips, D. Yin, M. Rudenko, B. Wu, and H. Schmidt, "Advances in integrated hollow waveguides for on-chip sensors", Proceedings of the SPIE, 6462:64620U (2007).

[8] B. Hornblowe, A. Coombs, R.D. Whitaker, A. Kolomeisky, S.J. Picone, A. Meller, M. Akeson "Single-molecule analysis of DNA-protein complexes using nanopores", Nature Methods (2007).

[9] S. Benner, R. J.A. Chen, N.A. Wilson, R. Abu-Shumays, N. Hurt, K.R. Lieberman, D.W. Deamer, W.B. Dunba,r and M. Akeson, "Sequence-Specific Detection of Individual DNA Polymerase Complexes in Real Time Using a Nanopore", Nature Nanotechnology, Vol. 2, Iss. 11, pp. 718-724 (2007).

[10] D.N. Ermolenko, Z.K.Majumdar, R.P. Hickerson, P.C. Spiegel, R.M. Clegg, and H.F. Noller, "Observation of intersubunit movement of the ribosome in solution using FRET", J Mol Biol, 370:530-40 (2007).

[11] D.N. Ermolenko, P.C. Spiegel, Z.K. Majumdar, R.P. Hickerson, R.M. Clegg, and H.F. Noller, "The antibiotic viomycin traps the ribosome in an intermediate state of translocation", Nat Struct Mol Biol, 6:493-7 (2007).

[12] P.C. Spiegel, D.N. Ermolenko, and H.F. Noller, "Elongation factor G stabilizes the hybrid-state conformation of the 70S ribosome", RNA 13:1473-1482 (2007).

[13] E.J. Lunt, P. Measor, B.S. Phillips, S. Kühn, H. Schmidt, and A.R. Hawkins, "Improving solid to hollow core transmission for integrated ARROW waveguides" Optics Express, 16, 20981-20986 (2008). (also selected for the February 10, 2009 issue of the Virtual Journal of Biomedical Optics, http://vjbo.osa.org/virtual_issue.cfm).

[14] P. Measor, S. Kühn, E.J. Lunt, B.S. Phillips, A.R. Hawkins, and H. Schmidt, "Hollow-core Waveguide Characterization by Optically Induced Particle Transport", Optics Letters, 33, 672-674 (2008). (also selected for the May 27, 2008 issue of the Virtual Journal of Biomedical Optics, http://vjbo.osa.org/virtual_issue.cfm).

[15] H. Schmidt and A.R. Hawkins, "Optofluidic waveguides: I. Concepts and implementations," Invited review, Microfluidics and Nanofluidics, 4, 3-16 (2008).

[16] A.R. Hawkins and H. Schmidt, "Optofluidic waveguides: II. Fabrication and structures," Invited review, Microfluidics and Nanofluidics, 4, 17-32 (2008).

[17] M.I. Rudenko, S. Kühn, E.J. Lunt, B.S. Phillips, D.W. Deamer, A.R. Hawkins, and H. Schmidt, "Fluorescence correlation spectroscopy of single molecules on an optofluidic chip", Proc. SPIE 6898, 689819 (2008).

[18] E.J. Lunt, B.S. Phillips, C.J. Jones, A.R. Hawkins, P. Measor, S. Kühn, and H. Schmidt, "Hollow waveguide optimization for fluorescence based detection", Proc. SPIE 6883, 68830H (2008)

[19] A. Korostelev, D.N. Ermolenko, and H.F. Noller, "Structural dynamics of the ribosome", Curr Opin Chem Biol., 12(6):674-83 (2008).

[20] P.V. Cornish, D.N. Ermolenko, H.F. Noller, T.Ha,"Spontaneous intersubunit rotation in single ribosomes", Mol Cell., 30(5):578-88 (2008).

[21] S. Kühn, P. Measor, E.J. Lunt, B.S. Phillips, D.W. Deamer, A.R. Hawkins, and H. Schmidt, "Loss-based optical trap for on-chip particle analysis", Lab on Chip, 9, 2212 (2009).

[22] S. Kühn, P. Measor, E.J. Lunt, B.S. Phillips, A.R. Hawkins, and H. Schmidt, "Optofluidic particle concentration by a long-range dual-beam trap", Optics Letters, 34, 2306-2308 (2009) (also selected for the October 2, 2009 issue of the Virtual Journal of Biomedical Optics, http://vjbo.osa.org/virtual_issue.cfm).

[23] M.I. Rudenko, S. Kühn, E.J. Lunt, D.W. Deamer, A.R. Hawkins and H. Schmidt, "Ultrasensitive Qβ Phage Analysis Using Fluorescence Correlation Spectroscopy on an Optofluidic Chip", Biosensors and Bioelectronics, 24, 3258-3263 (2009).

[24] P.V. Cornish, D.N. Ermolenko, D.W. Staple, L. Hoang, R. Hickerson, H.F. Noller, and T.Ha, "Following Movement of the L1 Stalk Between Three Functional States in Single Ribosomes", Proc Natl Acad Sci U S A., 106(8):2571-6 (2009).

[25] S. Kühn, E.J. Lunt, B.S. Philips, A.R. Hawkins, and H. Schmidt, “Ultralow power trapping and fluorescence detection of single particles on an optofluidic chip”, Lab Chip 10, 189 (2010).

[26] P. Measor, S. Kühn, E.J. Lunt, B.S. Philips, A.R. Hawkins, and H. Schmidt, “Multi-mode mitigation in an optofluidic chip for particle manipulation and sensing”, Optics Express 17, 24342 (2009). (also selected for the January 4, 2010 issue of the Virtual Journal of Biomedical Optics, http://vjbo.osa.org/virtual_issue.cfm).

[27] B.S. Phillips, P. Measor, Y. Zhao, H. Schmidt, and A.R. Hawkins, "Optofluidic notch filter integration by lift-off of thin films", Optics Express, 18, 4790 (2010). also selected for the April 8, 2010 issue of the Virtual Journal of Biomedical Optics, http://www.opticsinfobase.org/vjbo/virtual_issue.cfm).

[28] H. Schmidt and A.R. Hawkins, “Atomic Spectroscopy and Quantum Optics in Hollow-core Waveguides”, Laser and Photonics Reviews 4, 720 (2010).

[29] M. Holmes, J. Keeley, K. Hurd, H. Schmidt and A. Hawkins, “Optimized piranha etching process for SU8 based MEMS and MOEMS construction”, Journal of Micromechanics and Microengineering 20,115008 (2010)

[30] E.J. Lunt, B. Wu, J.M. Keeley, P. Measor, H. Schmidt, and A.R. Hawkins, “Improving Hollow ARROW Waveguides on Self-Aligned Pedestals for Improved Geometry and Transmission”, IEEE Phot. Tech. Lett. 22, 1041 (2010).

[31] M.R. Holmes, M.Rudenko, P. Measor, T. Shang, A.R. Hawkins, and H. Schmidt, “Micropore and nanopore fabrication in hollow antiresonant reflecting optical waveguides”, J. Micro/Nanolith. MEMS MOEMS 9, 023004 (2010).

[32] Damon A. Wheeler, Rebecca J. Newhouse, Haining Wang, Shengli Zou, Jin Z. Zhang, “Optical Properties and Persistent Spectral Hole Burning of Near Infrared-Absorbing Hollow Gold Nanospheres,” J. Phys. Chem. C., 2010, 114 (42), pp 18126-18133.

[33] S. Preciado-Flores, Danchen Wang, Damon A. Wheeler, Rebecca Newhouse, Jennifer Hensel, Adam Schwartzberg, Lihua Wang, Junjie Zhu, M. Barboza-Flores, Jin Z. Zhang, “Highly Reproducible Synthesis of Hollow Gold Nanospheres with Near Infrared Surface Plasmon Absorption Using PVP as Stabilizing Agent,” J. Mater. Chem., 2010, Volume, pp 2344-2350.

[34] M.H. Jenkins, B.S. Phillips, Y. Zhao, M.R Holmes, H. Schmidt, and A.R Hawkins, "Optical Characterization of Optofluidic Waveguides Using ", Opt. Comm. 284, 3980-3982 (2011).

[35] B.S. Phillips, M.H. Jenkins, S. Liu, H. Schmidt, and A.R. Hawkins, "Selective Thin Film Deposition for Optofluidic Platforms with Optimized Transmission", IEEE Photonics Technology Letters, 23, 1041 (2011).

[36] Y. Zhao, M. Jenkins, P. Measor, K. Leake, S. Liu, H. Schmidt, and A. R. Hawkins, “Hollow Waveguides with Low Intrinsic Photoluminescence Fabricated with Ta2O5 and SiO2 Films,” Applied Physics Letters 98, 091104 (2011).

[37] A. Chen, M. M. Eberle, E.J. Lunt, S. Liu, K. Leake, M.I. Rudenko, A.R. Hawkins, and H. Schmidt, “Dual-color fluorescence cross-correlation spectroscopy on a planar optofluidic chip,” Lab on Chip, 11(8), 1502-1506 (2011).

[38] P. Measor, B.S. Phillips, A. Chen, A.R. Hawkins, and H. Schmidt, " Tailorable integrated optofluidic filters for biomolecular detection, " Lab on a Chip, 11, 899-904 (2011).

[39] S. Preciado-Flores, Damon A. Wheeler, Tuan Minh Tran, Zuki Tanaka, Chaoyang Jiang, Marcelino Barboza-Flores, Fang Qian, Yat Li, Bin Chen, Jin Z. Zhang, “SERS spectroscopy and SERS imaging of Shewanella oneidensis using silver nanoparticles and nanowires,” Chem. Comm., 47, 4129-4131 (2011).

[40] Rebecca J. Newhouse, Haining Wang, Jennifer K. Hensel, Damon A. Wheeler, Jin Z. Zhang, "Coherent Vibrational Oscillations of Hollow Gold Nanospheres", J. Phys. Chem. Lett., 2 (3), 228–235 (2011).

[41] M.I. Rudenko, M.R. Holmes, D.N. Ermolenko, E.J. Lunt, S. Gerhardt, H.F. Noller, D.W. Deamer, A.R. Hawkins, and H. Schmidt, “Controlled gating and electrical detection of single 50S ribosomal subunits through a solid-state nanopore in a microfluidic chip“, Biosensors and Bioelectronics 29, 34-39 (2011).

[42] H. Schmidt and A.R. Hawkins, “The photonic integration of non-solid media using optofluidics”, Nature Photonics 5, 598-604 (2011).

[43] M.R. Holmes, S. Liu, J. Keeley, M.H. Jenkins, H. Schmidt, and A.R. Hawkins, “Hollow Waveguides with Low Intrinsic Photoluminescence Fabricated with PECVD SiN and SiO2 Films”, IEEE Photonics Technology Letters, 10.1109/LPT.2011.2162625 (2011).

[44] Y. Zhao, K. Leake, P. Measor, M. Jenkins, J. Keeley, H. Schmidt, and A.R Hawkins, "Optimization of Interface Transmission between Integrated Solid Core and Optofluidic Waveguides", IEEE Photonics Technology Letters 24, 46-48 (2012).

[45] D. Schulze-Makuch, J.N. Head, J.M. Houtkooper, M. Knoblauch, R. Furfaro, W. Fink, A.G. Fairen, H. Vali, S.K. Sears, M. Daly, D. Deamer, H. Schmidt, A.R. Hawkins, H.J. Sun, D.S.S. Lim, J. Dohm, L.N. Irwin, A.F. Davila, A. Mendez, and D. Andersen, "The Biological Oxidant and Life Detection (BOLD) mission: A proposal for a mission to Mars", Planetary and Space Science, 67, 57-69 (2012).

[46] Y. Zhao, B. Phillips, D. Ozcelik, J. Parks, P. Measor, D. Gulbransen, H. Schmidt, and A.R. Hawkins, “Tailoring the spectral response of liquid waveguide diagnostic platforms”, Journal of Biophotonics, 5, 703–711 (2012).

[47] D. Ozcelik, B.S. Phillips, J.W. Parks, P. Measor, D. Gulbransen, A.R. Hawkins, and H. Schmidt, “Dual-core optofluidic chip for independent particle detection and tunable spectral filtering”, Lab Chip, 12, 3728-3733 (2012).