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Biomedical Engineering Faculty


Dr.Jing Yong YeJing Yong Ye, Ph.D.
Associate Professor
Department of Biomedical Engineering

Educational Background:
Ph. D., University of Tsukuba, Japan.
B. S., Huazhong University of Science and Technology, China.

Areas of Research Interest:

Dr. Ye's research covers a wide range of areas in biomedical optics and nanobiotechnology, with special emphasis on the development of cutting-edge ultrasensitive and ultrafast laser-based detection techniques and methodologies to address critical issues at the frontier of biomedical science and technology.


His research activities involve:

Dr. Ye's research covers a wide range of areas in biomedical optics and nanobiotechnology, with special emphasis on the development of cutting-edge ultrasensitive and ultrafast laser-based detection techniques and methodologies to address critical issues at the frontier of biomedical science and technology. His research activities involve:

  1. Photoacoustic imaging with a unique optoacoustic sensor
  2. Label-free bioassays with photonic crystal biosensors
  3. Optical coherence tomography
  4. In vivo fiber-optic biosensing and imaging of multifunctional nano-devices for drug delivery
  5. Ultrafast laser interaction with nanoparticle targeted cancer cells
  6. Fiber scanning multiphoton microscopy
  7. In vivo two-photon flow cytometry
  8. Adaptive optical aberration correction in confocal microscopy, and
  9. Single-molecule fluorescence imaging and spectroscopy.

Dr. Ye has led multiple exciting research programs funded by NIH and several other funding agencies. He has published 81 refereed articles, over 130 conference papers, and two book chapters, and holds 12 patents. He serves as a reviewer for funding agencies including NIH, NSF, Petroleum Research Fund, United States-Israel Binational Science Foundation, the James & Esther King Biomedical Research Program and the Bankhead-Coley Cancer Research Program. He also serves as a reviewer for a number of scientific journals. He is a senior member of IEEE and was elected as the president for the OSA Ann Arbor Chapter for 2008-2009. In addition, Dr. Ye is a co-founder of Photon Affinity LLC and has served as a professional consultant for five companies.

Honors & Awards:

  • NASA Patent Application Award, 2011
  • Outstanding Research Scientist Award, College of Engineering, University of Michigan, 2006-2007
  • Senior Member, Institute of Electrical and Electronics Engineers (IEEE), since 2002
  • NEDO Fellow, New Energy and Industrial Technology Development Organization of Japan, 1999
  • JRCAT Award for outstanding researchers, 1998
  • Finalist for Inoue Prize, 1997
  • Japanese Government (Monbusho) Scholarship for Postgraduate Research (1993-1997)
  • Excellent Thesis Award in Optical Division of the Chinese Academy of Sciences (1990)
  • HUST Award for Outstanding Students (1987)

Professional Consultations:

Olympus Corp., Japan, IMRA America, Inc., Self-Guided Systems, LLC, and OptiScan, KCI Inc.

81 Peer Reviewed Articles
2 Book chapters
12 Patents
133 Conference Presentations

Journal Articles:

  • Bailin Zhang; Andres Morales, Ralph Peterson; Liang Tang, and Jing Yong Ye, "Label-free Detection of Cardiac Troponin I with a Photonic Crystal Biosensor", in press, Biosensors and Bioelectronics, 2014.
  • Ralph Peterson, Steven Solis, Bailin Zhang, He Huang, and Jing Yong Ye, "Sensitivity Enhancement of an Open Cavity Based Optoacoustic Sensor", Optics Letters, Vol. 38, 2739-2741 (2013).
  • Bailin Zhang, Juan Manuel Tamez-Vela, Steven Solis, Gilbert Bustamante, Ralph Peterson, Shafiqur Rahman, Andres Morales, Liang Tang and Jing Yong Ye, "Detection of Myoglobin with open-cavity and label-free photonic crystal biosensor", Journal of Medical Engineering, 808056, 2013.
  • Bailin Zhang, Chia-Yi Fang, Cheng-Chun Chang, Ralph Peterson, Saher Maswadi, Randolph D. Glickman, Huan-Cheng Chang, and Jing Yong Ye, "Photoacoustic Emission from Fluorescent Nanodiamonds Enhanced with Gold Nanoparticles", Biomedical Optics Express 3, 1662-1629 (2012).
  • Shatha Dallo, Bailin Zhang, James Denno, Soonbae Hong, Anyu Tsai, Williams Haskins, Jing Yong Ye, and Tao Weitao, "Association of Acinetobacter baumannii EF-Tu with cell surface, outer membrane vesicles and fibronectin", the Scientific World Journal, Vol. 2012, 127805 (2012)
  • Thommey P. Thomas, Yu-Chung Chang, Jing Yong Ye, Alina Kotlyar, Zhengyi Cao, Rameshwer Shukla, Suyang Qin, Theodore B. Norris, James R. Baker Jr., "Optical fiber-based in vivo quantification of growth factor receptors", Cancer, 118, 2148-56 (2012).
  • Yun Zhou, Kun Yang, Jianmin Cui, Jing Yong Ye, Cheri X. Deng, "Controlled permeation of cell membrane by single bubble acoustic cavitation Journal of Controlled Release", J. of Controlled Release, 157, 103-111, (2012).
  • Bailin Zhang, Shatha Dallo, Ralph Peterson, Syed Hussain, Tao Weitao, and Jing Yong Ye "Detection of anthrax lef with DNA-based photonic crystal sensors", Journal of Biomedical Optics 16, 127006 (2011).
  • Colin M. Chow, Yun Zhou, Yunbo Guo, Theodore Norris, Xueding Wang, Cheri Deng, and Jing Yong Ye, "Optical Ultrasound Sensor with a Unique Open-Cavity Structure", J. Biomed. Opt. 16, 017001 (2011).
  • Christine Tse, Marwa J Zohdy, Jing Yong Ye, Matthew O'Donnell, Wojciech Lesniak and Lajos Balogh, "Enhanced optical breakdown in KB cells labeled with folate-targeted silver-dendrimer composite nanodevices", Nanomed Nanotechnol Biol. Med., 7, 97-106 (2011) PMID: 20883823
  • Kun Yang, Yun Zhou, Qiushi Ren, Jing Yong Ye, and Cheri X. Deng, "Dynamics of microbubble generation and trapping by self-focused femtosecond laser pulses", Appl. Phys. Lett., 95, 051107 (2009).
  • Eric R. Tkaczyk, Alan H. Tkaczyk, Koit Mauring, Jing Yong Ye, James R. Baker Jr. and Theodore B. Norris, "Quantitative differentiation of dyes with overlapping one-photon spectra by femtosecond pulse shaping", Accepted for publication in Journal of Luminescence, 2009
  • Eric R. Tkaczyk, Alan H. Tkaczyk, Koit Mauring, Jing Yong Ye, James R. Baker Jr. and Theodore B. Norris, "Control of Two-photon Fluorescence of Common Dyes and Conjugated Dyes", Journal of Fluorescence, 19, 517-532 (2009).
  • Yu-Chung Chang, Jing Yong Ye, Thommey P. Thomas, Zhengyi Cao, Alina Kotlyar, Eric R. Tkaczyk, James R. Baker, Jr. and Theodore B. Norris, "Fiber-optic multiphoton in vivo flow cytometry", Submitted to Journal of Biomedical Optics, 2009.
  • Christine Tse, Marwa J. Zohdy, Jing Yong Ye, Matthew O'Donnell1, Wojciech Lesniak, and Lajos Balogh, "Targeted Intracellular Photodisruption of Cancer Cells with Laser Induced Optical Breakdown of Silver/Dendrimer Nanocomposites", submitted to Nanomedicine: Nanotechnology, Biology and Medicine. 2009.
  • Moussa N'Gom, Ashish Agarwal, Nicholas Kotov, Jing Yong Ye and Theodore B. Norris, "Enhanced Surface Third Harmonic Generation from Gold Nanorods", Submitted to Appl. Phys. Lett., 2008.
  • Yunbo Guo, Charles Divin, Andrzej Myc, Fred L. Terry, Jr., James R. Baker, Jr., Theodore B. Norris, and Jing Yong Ye, "Sensitive molecular binding assay using a photonic crystal structure in total internal reflection", Optics Express, Vol. 16, 11741-11749 (2008).
  • Jing Yong Ye and Mitsuru Ishikawa, "Enhancing fluorescence detection with a photonic crystal structure in a total-internal-reflection configuration", Optics Letters, Vol. 33, 1729-1731 (2008).
  • Y. Chang, J. Y. Ye, T. Thomas, Y. Chen, J. R. Baker, and T. B. Norris, "Two-photon fluorescence correlation spectroscopy through a dual-clad optical fiber," Opt. Express 16, 12640-12649 (2008).
  • Eric R. Tkaczyk, Cheng Frank Zhong, Jing Yong Ye, Andrzej Myc, Thommey Thomas, Zhengyi Cao, Raimon Duran-Struuck, Kathryn E. Luker, Gary D. Luker, Theodore B. Norris and James R. Baker Jr. "In vivo monitoring of multiple circulating cell populations using two-photon flow cytometry", Optics Communication, 281, 888-894 (2008).
  • Thommey P. Thomas, Jing Yong Ye, Yu-Chung Chang, Alina Kotlyar, Zhengyi Cao, Istvan J. Majoros, Theodore B. Norris and James R. Baker, Jr., "Investigation of tumor cell targeting of a dendrimer nanoparticle using a double-clad optical fiber probe", Journal of Biomedical Optics, 13, 014024 (2008).
  • Cheng Frank Zhong, Eric R. Tkaczyk, Jing Yong Ye, Andrzej Myc, Thommey Thomas, Zhengyi Cao, Raimon Duran-Struuck, Kathryn E. Luker, Gary D. Luker, Theodore B. Norris and James R. Baker, Jr. "Quantitative Two-Photon Flow Cytometry - in Vitro and in Vivo", Journal of Biomedical Optics, Vol.13, 034008 (2008).
  • Christine Tse, Marwa J. Zohdy, Jing Yong Ye, and Matthew O'Donnell, "Precision and penetration depth limitations of subsurface photodisruption in porcine skin tissue with infrared femtosecond laser pulses", IEEE Transactions on Biomedical Engineering, 55, 1211 - 1218 (2008).
  • Eric R. Tkaczyk, Koit Mauring, Alan H Tkaczyk, Veera Krasnenko, Jing Yong Ye, James R Baker, Jr., and Theodore B Norris, "Control of the blue fluorescent protein with advanced evolutionary pulse shaping", Biochemical and Biophysical Research Communications 376, 733-7 (2008).
  • Eric R. Tkaczyk, Alan H Tkaczyk, Steve Katnik, Jing Yong Ye, Kathryn Luker, Gary Luker, Andrzej Myc, James R. Baker, Jr., and Theodore B. Norris, "Extended Cavity Laser Enhanced Two-Photon Flow Cytometry", Journal of Biomedical Optics, 13, 041319 (2008).
  • Thommey P. Thomas, Rameshwar Shukla, Alina Kotlyar, Bradley Liang, Jing Yong Ye, Theodore B. Norris and James R. Baker, Jr. "Dendrimer-Epidermal Growth Factor Conjugate Displays Superagonist Activity", Biomacromolecules 9, 603-609 (2008).
  • J. Y. Ye, C. J. Divin, J. R. Baker, and T. B. Norris, "Whole spectrum fluorescence detection with ultrafast white light excitation," Opt. Express 15, 10439-10445 (2007)
  • M.J. Zohdy, C. Tse, J.Y. Ye, M. O'Donnell, "Acoustic estimation of thermal distribution in the vicinity of femtosecond laser-induced optical breakdown," IEEE Transactions on Biomedical Engineering, 53, 2347-2355 (2006).
  • Marwa J. Zohdy, Christine Tse, Jing Yong Ye, and Matthew O'Donnell, "Optical and acoustic detection of laser-generated microbubbles in single cells", IEEE Transactions on Ultrasonics, Ferroelectrics, and Frequency Control, 53, 117-125 (2006).
  • Christine Tse, Marwa J. Zohdy, Jing Yong Ye, Theodore B. Norris, Lajos P. Balogh, Kyle W. Hollman, and Matthew O'Donnell, "Acoustic Detection of Controlled Laser-Induced Microbubble Creation in Gelatin", IEEE Transactions on Ultrasonics, Ferroelectrics, and Frequency Control, 52, 1962-1969 (2005).
  • Jing Yong Ye, Christine Tse, Marwa J. Zohdy, Guoqing Chang, Kyle W. Hollman, Matthew O'Donnell, James R. Baker, Jr., Theodore B. Norris, "Trapping cavitation bubbles with a self-focused laser beam", Opt. Lett., 29, 2136-2138 (2004)
  • Thommey P. Thomas, Anil K. Patri, Andrzej Myc, Mon Thiri Myaing, Jing Yong Ye, Theodore B. Norris, and James R. Baker Jr., "In Vitro Targeting of Synthesized Antibody-Conjugated Dendrimer Nanoparticles", Biomacromolecules 5, 2269-2274 (2004).
  • T. Thomas, M. T. Myaing, J. Y. Ye, K. Candido, A. Kotlyar, J. Beals, P. Cao, B. Keszler, A. Patri, T. B. Norris, J. Baker, Jr. "Detection and analysis of tumor fluorescence using a two-photon optical fiber probe", Biophysics Journal, 86, 3959 (2004).
  • Mon Thiri Myaing, Jing Yong Ye, Theodore B. Norris, T. Thomas, A. Kotylar, A. Patri J. Baker, Jr. W.J. Wadsworth, R.M. Percival, G. Bouwmans, J.C. Knight, and P.St.J. Russell, "Enhanced Two-photon Biosensing with Double-Clad Photonic Crystal Fibers", Opt. Lett., 28, 1224 (2003).
  • V. P. Biju, J.Y. Ye, and M. Ishikawa, "Spatial heterogeneity in a polymer thin film probed by single molecules", J. Phys. Chem. B107, 10729-10735 (2003).
  • S. M. Milas, J. Y. Ye, T. B. Norris, L. P. Balogh, J. R. Baker, Jr., K. W. Hollman, S. Emelianov, M. O'Donnell, "Acoustic Characterization of Enhanced Laser-Induced Optical Breakdown Using Silver/Dendrimer Nanocomposites", Appl. Phys. Lett. 82, 994 (2003).
  • S. M. Milas, J. Y. Ye, T. B. Norris, K. W. Hollman, S. Emelianov, M. O'Donnell, "Acoustic Characterization of Microbubble Dynamics in Laser-Induced Optical Breakdown", IEEE Transactions on Ultrasonics, Ferroelectrics, and Frequency Control, 50, 517 (2003).
  • J. Y. Ye, M. T. Myaing, T. B. Norris, T. Thomas and J. Baker Jr., "Biosensing based on two-photon fluorescence measurements through optical fibers", Opt. Lett. 27, 1412 (2002).
  • Mitsuru Ishikawa, Yoshihiro Maruyama, Jing Yong Ye and Masayuki Futamata, "Single-molecule imaging and spectroscopy of adenine and an analog of adenine using surface-enhanced Raman scattering and fluorescence", J. Luminescence 98, 81 (2002)
  • Ishikawa M, Maruyama Y, Ye JY, Futamata M, "Single-molecule imaging and spectroscopy using fluorescence and surface-enhanced Raman scattering", J. Bio. Phys. 28, 573-585 (2002)
  • H. Inouye, M. Arakawa, J. Y. Ye; T. Hattori, H. Nakatsuka, K. Hirao, "Optical properties of a total-reflection-type one-dimensional photonic crystal", IEEE J. Quantum Electronics 38, 867 (2002)
  • J. Y. Ye, L. Balogh, and T. B. Norris, "Enhancement of Laser-Induced Breakdown Using Metal/Dendrimer Nanocomposites", Appl. Phys. Lett. 80, 1713 (2002).
  • L. Sherman, J. Y. Ye, O. Albert, and T. B. Norris, "Adaptive Correction of Depth Induced Aberrations in Multiphoton Confocal Microscopy using a Deformable Mirror", J. Microscopy 206, 65 (2002).
  • Yogi, T. Kawakami, M. Yamauchi, J. Y. Ye, and M. Ishikawa, "On-Demand Droplet Spotter for Preparing Pico-to Femtoliter Droplets on Surfaces", Anal. Chem. 73, 1896 (2001).
  • J. Y. Ye, K. Umemura, M. Ishikawa, and R. Kuroda, "Atomic Force Microscopy of DNA Molecules Stretched by Spin-Coating Technique", Anal. Biochem. 281, 21 (2000).
  • J. Y. Ye, Y. Yamane, M. Yamauchi, H. Nakatsuka, and M. Ishikawa, "Direct Observation of Interactions of Single Fluorescent Nucleotide Analogue Molecules with DNA Polymerase I", Chem. Phys. Lett. 320, 607 (2000).
  • J. Y. Ye, Y. Yamane, O. Yogi, N. Tsurumachi, H. Nakatsuka, and M. Ishikawa, "Enhancement of Two-Photon Excited Fluorescence Using One-Dimensional Photonic Crystals", Appl. Phys. Lett. 75, 3605 (1999).
  • M. Yamauchi, J. Y. Ye, O. Yogi, and M. Ishikawa, "Single Molecules on Quartz Contrasting Highly-Ordered Single Molecules ala Silicon", Chem. Lett. 735 (1999).
  • M. Ishikawa, J. Y. Ye, Y. Maruyama, and H. Nakatsuka, "Triphenylmethane Dyes Revealing Heterogeneity of their nanoenvironment: Femtosecond, Picosecond, and Single-Molecule Studies", J. Phys. Chem. A 103, 4319 (1999).
  • J. Y. Ye, M. Yamauchi, O. Yogi, and M. Ishikawa, "Spectroscopic Properties of 2'-(or-3')-O-(2, 4, 6-Trinitrophenyl) Adenosine 5'-Triphosphate Revealed by Time-Resolved Fluorescence Spectroscopy", J. Phys. Chem. B 103, 2812 (1999).
  • M. Ishikawa, O. Yogi, J. Y. Ye, and T. Yasuda, "Grouping of independent single molecules on silicon surfaces", Anal. Chem. 70, 5198 (1998).
  • J. Y. Ye, M. Ishikawa, O. Yogi, T. Okada, and Y. Maruyama, "Bimodal Site Distribution of a Polymer Film Revealed by Flexible Single-Molecule Probes", Chem. Phys. Lett. 288, 885 (1998).
  • J. Y. Ye, T. Hattori, H. Nakatsuka, Y. Maruyama, and M. Ishikawa, "Microscopic Dynamics of Glass Transition Investigated by Time-Resolved Fluorescence Measurements of Doped Chromophores", Phys. Rev. B 56, 5286 (1997).
  • H. Nakatsuka, J. Y. Ye, T. Hattori, Y. Maruyama and M.Ishikawa, "Microscopic Study of Glass Transition: Time-Resolved Fluorescence Measurements of Doped Dye Molecules", Prog. Theor. Phys., suppl. 126, 433 (1997).
  • J. Y. Ye, T. Hattori, H. Inouye, H. Ueta, H. Nakatsuka, Y. Maruyama, and M. Ishikawa, "Glass Transition of Associated Solvents Studied by Fluorescence Measurement of Doped Chromophores", Phys. Rev. B 53, 8349 (1996).
  • K. M. Abedin, J. Y. Ye, H. Inouye, T. Hattori, H. Sumi and H. Nakatsuka, "Diffusive Torsional Dynamics of Malachite Green Molecules in Solid Matrices Probed by Fluorescence Decay", J. Chem. Phys. 103, 6414 (1995).
  • K. M. Abedin, J. Y. Ye, H. Inouye, T. Hattori, and H. Nakatsuka, "Local Dynamics in Solid Matrices Investigated by Malachite Green Optical Microprobes", J. Luminescence 64, 135 (1995).
  • J. Y. Ye, M. S. Zhan and S. K. Zhou, "Gain Due to Level-Dependent Collisions", Phys. Rev. A 48, 2256 (1993).
  • J. Y. Ye, M. S. Zhan and S. K. Zhou, "Light Amplification by the Effect of Velocity Redistribution of Particles due to the Level Dependence of Collision Cross Sections", Phys. Lett. A 166, 352 (1992)
  • J. Y. Ye, L. S. Yang and Y. Q. Lu, "Rate Equation Theory of Light-Induced Drift", The Chinese Journal of Atom and Mol. Phys. 9, 2125 (1992).
  • J. Y. Ye, M. S. Zhan, and S. K. Zhou, "A New Model on Light Amplification without Population Inversion", The Chinese Journal of Quantum Electronics, 9, 65 (1992).

Refereed Conference Proceedings Articles:

  • Y. Guo, J. Y. Ye, B. Huang, D. McNerny, T. P. Thomas, J. R. Baker, Jr. and T. B. Norris, "Real-time small molecule binding detection using a label-free optical biosensor," Frontiers in Pathogen Detection: From Nanosensors to Systems. Edited by Fauchet, Philippe M.; Miller, Benjamin L. Proceedings of the SPIE, Volume 7553, pp. 755303-8 (2010).
  • Y. Guo, J. Y. Ye, C. Divin, T. P. Thomas, A. Myc, T. F. Bersano-Begey, J. J. R. Baker, and T. B. Norris, "Label-free biosensing using a photonic crystal structure in a total-internal-reflection geometry," Proc. of SPIE,Vol. 7188, 71880B1-12 (2009).
  • Yu-Chung Chang, Jing Yong Ye, Thommey P. Thomas, Zhengyi Cao, Alina Kotlyar, Eric R. Tkaczyk, James R. Baker, Jr., and Theodore B. Norris, "Two-photon in vivo flow cytometry using a fiber probe", Proc. SPIE 7173, 71730I (2009).
  • Eric R. Tkaczyk; Cheng Frank Zhong; Jing Yong Ye; Steve Katnik; Andrzej Myc; Thommey Thomas; Kathryn E. Luker; Gary D. Luker; James R. Baker, Jr.; Theodore B. Norris, "Two-photon, two-color in vivo flow cytometry to noninvasively monitor multiple circulating cell lines", Proc. of SPIE on Novel Optical Instrumentation for Biomedical Applications III, Vol. 6631, 66310T (2007)
  • Christine Tse, Wojciech Lesniak, Lajos P. Balogh, Jing Yong Ye, and Matthew O'Donnell, "Metal/Dendrimer Nanocomposites for Enhanced Optical Breakdown: Acoustic Characterization and Initial Targeted Cell Uptake Study", Proc. of SPIE on Genetically Engineered and Optical Probes for Biomedical Applications IV, Vol. 6449, 64490C (2007).
  • Eric R. Tkaczyk, Augustin Mignot, Jing Yong Ye, Theodore B. Norris, "Increasing two-hoton fluorescence signals by coherent control", Proceedings of SPIE on Multiphoton Microscopy in the Biomedical Sciences VI, Vol. 6089, 608910-1-10 (2006).
  • Thommey Thomas, Jing Yong Ye, Istvan Majoros, Alina Kotlyar, Zhengyi Cao, James Baker Jr. and Theodore B. Norris, "Real-time fluorescence measurement of a tumor-targeted nanodevice by a two-photonoptical fiber fluorescence probe", Proceedings of SPIE on Nano/Biophotonics and Biomedical Applications III, Vol. 6095, 60950Q1-7 (2006).
  • Christine Tse, Marwa J. Zohdy, Jing Yong Ye, and Matthew O'Donnell, "Subsurface photodisruption in pig skin as monitored by high-frequency ultrasound", Proceedings of SPIE on Photons Plus Ultrasound Imaging and Sensing Vol. 6086, pp. 1-9 (2006).
  • M.J. Zohdy, C. Tse, J.Y. Ye, L.P. Balogh, T.B. Norris, M. O'Donnell, "Optical and acoustical monitoring of femtosecond laser-induced intracellular contrast agents: Initial cell culture studies", SPIE, Vol. 5697, 291-300 (2005).
  • Zhong CF, Ye JY, Myc A, Thomas TP, Bielinska AU, Baker JR Jr., Norris TB. Two-photon Flow Cytometry. SPIE, Vol. 5700, 78-89 (2005).
  • J. Y. Ye, M. T. Myaing, T. P. Thomas, I. Majoros, A. Koltyar, J. R. Baker, Jr., W. J. Wadsworth, G. Bouwmans, J.C. Knight, P.St.J. Russell, and T. B. Norris, "Development of a dual-clad photonic-crystal-fiber based scanning microscope", Multiphoton Microscopy in the Biomedical Sciences V, edited by Ammasi Periasamy Proceedings of SPIE Vol. 5700, 23-27 (2005).
  • Christine Tse, Marwa Zohdy, Jing Yong Ye, Theodore B. Norris, Lajos Balogh, Kyle ollman, and Matthew O'Donnell, "Acoustic detection of controlled LIOB bubble creation in tissue-mimicking gelatin phantoms", Proceedings of the 2004 IEEE Ultrasonics Symposium, pp. 350-353 (2004).
  • M. O'Donnell, C. Tse, M. Zohdy, T. Erpelding, K. Hollman, J.Y. Ye, T.B. Norris, and L. Balogh, "Combined Ultrasonic Microscopy and Ultrafast Optics for Molecular Imaging and Therapy", Proceedings of the 2004 IEEE Ultrasonics Symposium, pp. 354-363 (2004).
  • M.J. Zohdy, C. Tse, J.Y. Ye, M. O'Donnell, "Combined optical and ultrasonic monitoring of laser-generated intracellular contrast agents: initial cell culture studies", Proceedings of the 2004 IEEE Ultrasonics Symposium, 1098-1101 (2004).
  • Tse C, Zhody M, Ye JY, Norris TB, Balogh L, Hollman K, and O'Donnell M., "Monitoring LIOB-induced bubble characteristics in gelatin using high-frequency ultrasound", SPIE Proceedings of the 2004 Conference on Medical Imaging 5373, 242-249 (2004).
  • Myaing MT, Ye JY, Norris TB, Thomas TP, Baker Jr. JR, Wadsworth WJ, Bouwmans G, Knight JC, Russell P.St.J., "Two-photon fluorescence biosensing with conventional and photonic crystal fibers", Optical fibers and sensors for medical applications IV, SPIE, vol. 5317, 151-157 (2004).
  • Zhody MJ, Tse C, Ye JY, and O'Donnell M, "An ultrasonic method to measure effective emperature in the vicinity of laser-induce optical breakdown", Proceedings of the 2003 IEEE Ultrasonics Symposium, pp. 1103-1106 (2003).
  • O'Donnell M, Milas SM, Ye JY, Norris TB, Balogh LP, Baker JR, Hollman K, Emelianov SY, "Acoustic detection of laser induced optical breakdown in dendrimer nanocomposites: Implications for site targeted molecular diagnostics and therapeutics", IEEE Ultrasonic symposium proceedings, Vols. 1 & 2, 1912-1915, (2002).
  • Yogi, M. Ishikawa, J. Y. Ye, M. Yamauchi, and T. Kawakami, "Development of a Droplet Generator for Single-Molecule Fluorescence Imaging", Technical Report of IEICE, OME98-83, 85 (1998).
  • J. Y. Ye, M. S. Zhan, and S. K. Zhou, "Light Gain without Population Inversion due to the Level Dependence of Collision Cross Sections", SPIE-Int. Soc. Opt. Eng. 1726, 532 (1992).
  • J. Y. Ye, L. S. Yang, and Y. Q. Lu, "Calculation of Velocity of Light-Induced Drift", The Chinese Journal of Laser and Infrared, 20, 17 (1990).

Book Chapters:

  • M. Ishikawa and J. Y. Ye, "Probing Nanoenvironments Using Functional Chromophores"
    A book chapter in "Molecular and Supramolecular Photochemistry", vol. 7 "Sensors and Optical Switching Phenomena", eds. V. Ramamurthy and K. S. Schanze, (CRC press, 2003).
  • J. Y. Ye and T. Norris, "Optical and Biophotonic Applications of Dendrimers Conjugates", A book chapter in "DENDRIMER-BASED NANOMEDICINE", edited by Istvan Majoros & James Baker, Jr. (World Scientific, 2008).

Patents:

  • Light enhancement method and device, and their applications in fluorescence detection J. Y. Ye and M. Ishikawa
    Patent: JP 2001-242083, Japan, Application date: 3/1/2000, Publication date: 9/7/2001
  • Light enhancement method and device, and their applications in fluorescence detection
    J. Y. Ye and M. Ishikawa
    Patent: JP 2001-242083, Japan, Application date: 3/1/2000, Publication date: 9/7/2001
  • Laser-based method and system for enhancing optical breakdown
    J. Y. Ye, T. B. Norris, L. P. Balogh, J. R. Baker, Jr.
    Patent filed in August, 2002, Serial No. 60/407018, Issued on Jan. 6, 2009, Patent No. 7,474,919 B2
  • Acoustic monitoring method and system in laser-induced optical breakdown
    M. O’Donnell, J. Y. Ye, T. B. Norris, L. P. Balogh, J. R. Baker, Jr., S. M. Milas, K. W. Hollman, S. Emelianov
    Patent filed in August, 2002, Serial No. 60/406861, Issued on May 6, 2008, Patent No. 7,367,948.
  • Enhancing Fiber-Optic Sensing Technique Using a Dual-Core Fiber
    J. Y. Ye, T. B. Norris, M. T. Myaing, T. Thomas, J. R. Baker, Jr.
    Patent filed in December, 2002, Serial No. 60/434604, Issued on May 16, 2006, Patent No. 7,046,888
  • Enhancing Fiber-Optic Sensing Technique Using a Dual-Core Fiber
    J. Y. Ye, T. B. Norris, M. T. Myaing, T. Thomas, J. R. Baker, Jr.
    Filed on March 9, 2006, Issued on June 26, 2007, Patent No. 7,236,673
  • Double-Clad-Fiber Scanning Microscope
    J. Y. Ye, and T. B. Norris
    Patent filed on May 29, 2003, Serial No. 60/474,113, Converted to utility patent application, Serial No. 10/566,620, Issued on April 22, 2008, Patent No. 7,362,500.
  • Quantitative two-photon flow cytometry
    J. Y. Ye, T. B. Norris, F. Zhong, and J. R. Baker, Jr.
    Patent filed in September, 2004, Serial No. 60/611,261
  • Whole spectrum fluorescence detection with ultrafast white light excitation
    J. Y. Ye, T. B. Norris, and J. R. Baker, Jr.
    Patent filed on February 18, 2005, Serial No. 60/654,853
    Converted to utility patent application on Feb. 16, 2006, Serial No. 11/355,387
    Issued on Oct. 2. 2007, Patent No. 7,277,169
  • Novel Photonic Crystal Sensor
    J. Y. Ye, Y. Guo, T. B. Norris, and J. R. Baker, Jr.
    Patent filed on July 25, 2006, Serial No. 60/833,101, Converted to utility patent application on July 25, 2007, Serial No. 11/881,040. Approved for issuance
  • Photonic Crystal Sensor
    J. Y. Ye, J. Gestwicki, T. B. Norris, and J. R. Baker, Jr., and T. Bersono-Begey
    Patent filed on Nov. 11, 2009, Serial No. 12/616,457
    Issued on July 30, 2013, Patent No. 8,487,992
  • Two-Photon Endoscopic Scanning Assembly for Inflammatory Disease Detection
    Kenn Oldham, Thomas D. Wang, Zhongyao Liu, and Jing Yong Ye
    filed on January 23, 2012, Application No. 13/356,286.
  • A Precise Time-Domain Backprojection Approach For Photoacoustic Image Reconstruction
    He Huang and Jing Yong Ye, filed on Dec. 19, 2013. Serial Number: 61/918,365.

News Releases:

  • Development of single-molecule fluorescence detection strategies to effective DNA sequencing Japanese Business and Technology, August 5, 1998.
  • Optical fiber carries both excitation and fluorescence light for biosensing Laser Focus World, Vol. 38, Issue 11, Newsbreaks, November, 2002
  • Thommey Thomas, Istvan Majoros, James Baker, Jr., Jing Yong Ye, Mon Thiri Myaing, and Theodore Norris, "Engineered Nanoparticles" invited article, OE Magazine-SPIE, 3, 30 (2003)
  • Laser-Induced Optical Breakdown in Dendrimer Nanoparticle Composites Nikkei Advanced Technology Report, No. 227, 10 (March 8, 2004).
  • Nanocomposite Labeled Cancer Cells can be Targeted and Destroyed Using Lasers, New Study Reveals, PR Newswire, May 20, 2007.
  • View from... Nanophotonics 2007: Nanophotonics comes to China Nature Photonics 1, 498 - 499 (2007)
  • Nanocomposite labeled cancer cells can be targeted and destroyed using lasers, Science Daily, News May 21, 2007
  • Supercontinuum Light Source Simplifies Detection of Multiple Fluorophores, Photonics Spectra, Oct. issue, 2007
  • ULTRAFAST SUPER-CONTINUUM SOURCES: Time-gated technique detects whole-spectrum fluorescence, Laser Focus World, Nov. issue, 2007

Contact Information:

College of Engineering, Room AET 1.362
Department of Biomedical Engineering
University of Texas at San Antonio
Phone: 210-458-5056
Fax: 210-458-7007
jingyong.ye@utsa.edu

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