Publications

Hung, C.T., Liu, Y.R., Chen, K.C., Chang, Y.C., Wang, Y.L. & Chen, Y.F.* Microcone array-mediated distance tuning for photonic nanojet-amplified SERS. Adv. Opt. Mater. e71466 (July 2026).

Chen, Z.X., Li, S.P., Su, X.W., Peng, C.C., Tung, Y.C.* & Chen, Y.F.* Tapered hydrogel optical fiber probe for rapid and localized luminescence lifetime-based dissolved oxygen sensing. Opt. Express 34, 21114-21125 (June 2026).

Li, S.P., Tsai, H.C., Yen, C.Y. & Chen, Y.F.* Raman spectroscopy for molecular diagnosis of psoriatic nails with SEM validation. Spectrochim. Acta A Mol. Biomol. Spectrosc. 344, 126756 (2026).

Lai, Y.T., Li, Y.C., Chen, Y.F. & Cheng, J.Y.* Classifying cell viability using a label-free approach: integration of phase-contrast imaging, Raman spectroscopy, and deep learning. Microchem. J 212, 113159 (May 2025).

Wu, L.A., Hsieh, K.T., Lin, C.S., Wang, Y.L. & Chen, Y.F.* SERS-active core-satellite nanostructures in a membrane filter-integrated microfluidic device for sensitive and continuous detection of trace molecules. Microfluid. Nanofluid. 28, 57 (2024).

Xie, C.Z., Li, C.H., Chang, Y.C. & Chen, Y.F.* Optofluidic accumulation of silica beads on gel-based three-dimensional SERS substrate to enhance sensitivity using multiple photonic nanojets. ACS Appl. Mater. Interfaces 15, 31703-31710 (2023).

Siao, Y.J., Peng, C.C., Tung, Y.C.* & Chen, Y.F.* Comparison of hydrogen peroxide secretion from living cells cultured in different formats using hydrogel-based LSPR substrates. Front. Bioeng. Biotechnol. 10, 869184 (2022).

Chen, Y.C., Hong, S.W., Wu, H.H., Wang, Y.L. & Chen, Y.F.* Rapid formation of nanoclusters for detection of drugs in urine using surface-enhanced Raman spectroscopy. Nanomaterials 11, 1789 (2021).

Chen, Y.C., Chen, J.J., Hsiao, Y.J., Xie, C.Z., Peng, C.C., Tung, Y.C.* & Chen, Y.F.* Plasmonic gel films for time-lapse LSPR detection of hydrogen peroxide secreted from living cells. Sens. Actuators B-Chem. 336, 129725 (2021).

Rehman, K.U., Das, S., Chen, Y.F. & Kao, F.J. High temporal resolution and polarization resolved fluorescence lifetime measurements through stimulated emission. Methods Appl. Fluoresc. 8, 024008 (2020).

Kang, C.Y., Li, J.J., Wu, L.A., Wu, C.C. & Chen, Y.F.* Dynamic and reversible accumulation of plasmonic core-satellite nanostructures in a light-Induced temperature gradient for in situ SERS detection. Part. Part. Syst. Charact. 35,1700405 (2018).

Wu, L.A., Li, W.E., Lin, D.Z. & Chen, Y.F.* Three-dimensional SERS substrates formed with plasmonic core-satellite nanostructures. Sci. Rep. 7, 13066 (2017).

Wu, Y.C., Lee, N., Tu, Y.K., Huang, C.P., Huang, N.T., Chen, Y.F. & Chang, P.C.* Salivary biomarker combination prediction model for the diagnosis of periodontitis in a Taiwanese population. J. Formos. Med. Assoc. S0929-6646, 30602-2 (2017).

Lee, J.K., Wang, I.S., Huang, C.H., Chen, Y.F., Huang, N.T. & Lin, C.T.* Pre-clinical tests of an integrated CMOS biomolecular sensor for cardiac diseases diagnosis. Sensors 17, 2733 (2017).

Lin, D.Z., Chuang, P.C., Liao, P.C., Chen, J.P. & Chen, Y.F.* Increasing the spectral shifts in LSPR biosensing using DNA-functionalized gold nanorods in a competitive assay format for the detection of interferon-γ. Biosens. Bioelectron. 81, 221 – 228 (2016).

Yu, L.H. & Chen, Y.F.* Concentration-dependent thermophoretic accumulation for the detection of DNA using DNA-functionalized nanoparticles. Anal. Chem. 87, 2845 – 2851 (2015).

Kang, P., Serey, X., Chen, Y.F. & Erickson, D.* Angular orientation of nanorods using nanophotonic tweezers. Nano Lett. 12, 6400 – 6407 (2012).

Chen, Y.F.*, Jain, A., Jiang, L., Mancuso, M., Oncescu, V. & Erickson, D. Optofluidic opportunities in global health, food, water and energy. Nanoscale 4, 4839 – 4857 (2012). (Feature Article)

Chen, Y.F., Serey, X., Sarkar, R., Chen, P. & Erickson, D.* Controlled photonic manipulation of proteins and other nanomaterials. Nano Lett. 12, 1633 – 1637 (2012).

Serey, X., Mandal, S, Chen, Y.F. & Erickson, D.* DNA transport and delivery in thermal gradients near optofluidic resonators. Phys. Rev. Lett. 108, 048102 (2012).

Erickson, D.*, Serey, X., Chen, Y.F. & Mandal, S. Nanomanipulation using near field photonics. Lab Chip 11, 995–1009 (2011). (Selected as inside front cover image)

Milstein, J.N., Chen, Y.F. & Meiners, J.-C.* Bead size effects on protein-mediated DNA looping in tethered- particle motion experiments. Biopolymers 95, 144 – 150 (2011).

Chen, Y.F., Milstein, J.N. & Meiners, J.-C.* Protein-mediated DNA loop formation and breakdown in a fluctuating environment. Phys. Rev. Lett. 104, 258103 (2010).

Chen, Y.F., Milstein, J.N. & Meiners, J.-C.* Femtonewton entropic forces can control the formation of protein-meditated DNA loops. Phys. Rev. Lett. 104, 048301 (2010). (Designated as an Editors’ Suggestion and spotlighted with an editorial Synopsis; reported in Genome Technology Magazine, Discovery News, and United Press International.)

Chen, Y.F., Wilson, D.P., Raghunathan, K. & Meiners, J.-C.* Entropic boundary effects on the elasticity of short DNA molecules. Phys. Rev. E 80, 020903(R) (2009). (Also selected for the September 1, 2009 issue of Virtual Journal of Biological Physics Research)

Chen, Y.F., Blab, G.A. & Meiners, J.-C.* Stretching submicron biomolecules with constant-force axial optical tweezers. Biophys. J. 96, 4701 – 4708 (2009). 

高甫仁、陳奕帆、丁瓘媛、蔡元杰、董明遠，以特定光譜光源做快速差分對比的非掃描式拉曼影像方法及系統，中華民國專利 (2026/4)。

陳奕帆、遊麗仙，熱泳效應檢測分子的方法，中華民國專利 (2016/10)。

Erickson, D. & Chen, Y.F., Optical trapping apparatus, methods and applications using photonic crystal resonators. U.S. patent filed (Nov 2011).

Hsu, Y.H., Hsiao, W.H., Wu, W.J., Lee, C.K., Cheng, C.C., Chen, Y.F., Chen, C.K., Tsai, F.J. & Huang, C.T. Apparatus and method for mounting a piezoelectric transducer on a print circuit board. R.O.C. Patent I288588 (Oct 2007).

Hsu, C.H., Rao, H., Lee, C.K., Wu, W.J., Hsiao, W.H., Chen, C.K., Chen, Y.F., Chen, Y.C. & Hung, J.N. Alert system and method for geographic or natural disasters utilizing a telecommunications network. R.O.C. Patent I284864 (Aug 2007).

Jin, M.H., Kao, C.Y., Chen, Y.F., Wu, W.J. & Lee, C.K. Structure and management of automatic hierarchical sensor networks. R.O.C. Patent I253252 (Apr 2006).

Hsu, C.H., Rao, H., Lee, C.K., Wu, W.J., Hsiao, W.H., Chen, C.K., Chen, Y.F., Chen, Y.C. & Hung, J.N. Alert system and method for geographic or natural disasters utilizing a telecommunications network. U.S. Patent 6914525 (July 2005).

Lin, B.C. & Chen, Y.F. Stretchable hydrogel-based SERS sensor for biomarker and pesticide detection. International Conference on Smart Sensors (ICSS 2025), Hsinchu, Taiwan (June 2025). (Poster presentation)

Chin, Y.C., Liu, Y.R. & Chen, Y.F. Enhancing SERS performance using microcone arrays and slippery surfaces with hydrophilic-hydrophobic contrast. International Conference on Smart Sensors (ICSS 2025), Hsinchu, Taiwan (June 2025). (Oral presentation)

Tung, M.Y., Kao, F.J. & Chen, Y.F. Wide-field Raman imaging with background suppression and rapid acquisition. Focus on Microscopy 2025, Taipei, Taiwan (Apr. 2025). (Poster presentation)

Hung, C.T., Liu, Y.R. & Chen, Y.F. Utilizing a microcone array to control the distance between a microsphere and a SERS substrate for photonic nanojet-mediated SERS. META 2024, Toyama, Japan (July 2024). (Poster presentation)

Su, X.W., Chen, Z.X., Kannan, S., Tung, Y.C. & Chen, Y.F. Fluorescence lifetime-based oxygen detection using a tapered hydrogel optical fiber. International Conference on Smart Sensors (ICSS 2024), Hsinchu, Taiwan (July 2024). (Oral presentation)

Liu, Y.R., Hung, C.T., Chin, Y.C. & Chen, Y.F. Using a microcone array to control the distance between a microsphere and a SERS substrate for photonic nanojet-mediated SERS. International Conference on Smart Sensors (ICSS 2024), Hsinchu, Taiwan (July 2024). (Oral presentation)

Li, S.P. & Chen, Y.F. A tapered fluorescent hydrogel optical fiber for monitoring pH dynamics. International Conference on Smart Sensors (ICSS 2024), Hsinchu, Taiwan (July 2024). (Poster presentation, Runners-up Poster Award)

Hung, C.T., Liu, Y.R. & Chen, Y.F. Controlling the distance between a microsphere and a SERS substrate for photonic nanojet-mediated SERS. International Conference on Smart Sensors (ICSS 2023), Tainan, Taiwan (June 2023). (Poster presentation)

Tsai, Y.J. & Chen, Y.F. Using a microsphere-embedded thin film to generate photonic nanojets to enhance SERS signals. International Conference on Smart Sensors (ICSS 2023), Tainan, Taiwan (June 2023). (Poster presentation)

Chen, Z.X. & Chen, Y.F. Nanoparticle-decorated tapered hydrogel fiber for localized surface plasmon resonance biosensing. International Conference on Smart Sensors (ICSS 2023), Tainan, Taiwan (June 2023). (Poster presentation, Best Poster Award)

Tsai, Y.J., Chuang, C.H. & Chen, Y.F. Low-cost super resolution microscopy using photonic nanojets generated by a movable microsphere array. International Conference on Smart Sensors (ICSS 2022), Taichung, Taiwan (Oct. 2022). (Oral presentation)

Chen, Z.X. & Chen, Y.F. Optofluidic fabrication of hydrogel optical fiber for particle manipulation and LSPR biosensing. International Conference on Smart Sensors (ICSS 2022), Taichung, Taiwan (Oct. 2022). (Poster presentation)

Hung, C.T., Chen, Y.C., Yang, T.E. & Chen, Y.F. SERS detection of bacteria using porous structures. International Conference on Smart Sensors (ICSS 2022), Taichung, Taiwan (Oct. 2022). (Poster presentation)

Chen, Y.C., Yang, T.E. & Chen, Y.F. Plasmonic sponge for SERS detection of small molecules and viruses. International Conference on Smart Sensors (ICSS 2021), online conference (Oct. 2021). (Oral presentation)

Wu, Y.J., Liu, Y.R. & Chen, Y.F. Rapid SERS-based antibiotic susceptibility testing using a plasmonic gel droplet. International Conference on Smart Sensors (ICSS 2021), online conference (Oct. 2021). (Poster presentation)

 Chen, Y.C., Hong, S.W. & Chen, Y.F. A rapid and sensitive SERS method for illegal drug detection. International Conference on Smart Sensors (ICSS 2020), Kaohsiung, Taiwan (Oct. 2020). (Oral presentation, Excellent Oral Paper Award)

Wu, Y.J., Xie, C.Z. & Chen, Y.F. Optofluidic assembly of beads for photonic nanojet-assisted SERS. International Conference on Smart Sensors (ICSS 2020), Kaohsiung, Taiwan (Oct. 2020). (Oral presentation)

Wu, L.A., Chen, Y.C., Pai, W.C., Hsu, Y.H. & Chen, Y.F. Plasmonic nanoparticles in agarose gel and filter paper-integrated microfluidic devices for SERS detection of molecules. SPIE Photonics West, San Francisco, CA, USA (Feb. 2020). (Proc. SPIE 11257, Plasmonics in Biology and Medicine XVII, 1125702 (Feb. 2020)) (Oral presentation)

Chen, Y.C., Wu, L.A., Chen, K.Y. & Chen, Y.F. Generating microbubbles in a plasmonic gel droplet for SERS detection of molecules in complex fluids. International Conference on Smart Sensors (ICSS 2019), Hsinchu, Taiwan (June 2019). (Poster presentation, Excellent Poster Award)

Wu, L.A., Pai, W.C., Hsu, Y.H. & Chen, Y.F. Integrating core-satellite nanostructures and filter paper for sensitive SERS detection of sodium thiocyanate in milk. International Conference on Smart Sensors (ICSS 2019), Hsinchu, Taiwan (June 2019). (Oral presentation)

Chen, Y.C., Chen, K.Y., Hsu, K.H. & Chen, Y.F. Surface-enhanced Raman spectroscopy and localized surface plasmon resonance detection of hydrogen peroxide using plasmonic gels. SPIE Photonics West, San Francisco, CA, USA (Feb. 2019). (Proc. SPIE 10894, Plasmonics in Biology and Medicine XVI, 108940R (Mar. 2019)) (Oral presentation)

Chen, Y.C., Chen, K.Y. & Chen, Y.F. Plasmonic agarose gel droplets for SERS detection of molecules in complex fluids and cell culture medium. The 22nd International Conference on Miniaturized Systems for Chemistry and Life Sciences (MicroTAS 2018), Kaohsiung, Taiwan (Nov. 2018). (Poster presentation)

Li, J.J., Wen, H.S., Chen, Y.C. & Chen, Y.F. Using plasmonic porous nanoparticles for SERS detection of illicit drugs. The 23rd Symposium of Association for Chemical Sensors in Taiwan (SCAST), Taipei, Taiwan (June 2018). (Poster presentation, Best Poster Award)

Wu, C.C., Wu, L.A., Chou, L.T. & Chen, Y.F. Detection of tetracycline using isothermal amplification. The 23rd Symposium of Association for Chemical Sensors in Taiwan (SCAST), Taipei, Taiwan (June 2018). (Poster presentation)

Chen, K.Y., Li, J.J. & Chen, Y.F. Optofluidic SERS techniques capable of detecting molecules in complex fluids. The 23rd Symposium of Association for Chemical Sensors in Taiwan (SCAST), Taipei, Taiwan (June 2018). (Oral presentation)

Chen, Y.C., Li, J.J., Kang, C.Y., Wu, L.A. & Chen, Y.F. Accumulating plasmonic nanostructures in a laser-induced temperature gradient for SERS. The 22nd Symposium of Association for Chemical Sensors in Taiwan (SCAST), Tainan, Taiwan (May 2017). (Oral presentation, Best Conference Paper Award)

Wu, L.A., Li, W.E. & Chen, Y.F. DNA-assisted assembly of plasmonic core-satellite nanostructures for surface-enhanced Raman spectroscopy (SERS). IEEE 12th International Conference on Nano/Micro Engineered and Molecular Systems (NEMS), Los Angeles, CA, USA (Apr. 2017) (Proc. pp. 206-209). (Poster presentation, Best Poster Award)

Wu, C.C., Wu, L.A., Chou, L.T. & Chen, Y.F. Detection of tetracycline using isothermal amplification. IEEE 12th International Conference on Nano/Micro Engineered and Molecular Systems (NEMS), Los Angeles, CA, USA (Apr. 2017) (Proc. pp. 210-213). (Poster presentation)

Lin, C.S., Hsieh, K.T., Wu, L.A., Li, W.E. & Chen, Y.F. Self-assembled core-satellite nanostructures for surface-enhanced Raman spectroscopy (SERS). Taiwan Association of Raman Spectroscopy (TARS) 2016, Taipei, Taiwan (June 2016). (Poster presentation)

Wu, L.A., Li, W.E. & Chen, Y.F. DNA-guided assembly of plasmonic nanostructures for surface-enhanced Raman spectroscopy (SERS). Focus on Microscopy 2016, Taipei, Taiwan (Mar. 2016). (Poster presentation)

Wu, L.A., Li, W.E. & Chen, Y.F. DNA-guided assembly of three-dimensional nanostructures for surface-enhanced Raman spectroscopy. International Symposium on Chemical and Polyscale Technologies for Biomedical Applications and Environmental Sustainability (IsCPT), Taipei, Taiwan (Sep. 2015). (Poster presentation)

Kang, C.Y., Wu, L.A., Yu, L.H. & Chen, Y.F. Thermophoretic accumulation for detecting molecules. International Symposium on Chemical and Polyscale Technologies for Biomedical Applications and Environmental Sustainability (IsCPT), Taipei, Taiwan (Sep. 2015). (Poster presentation)

Wu, S.H., Chuang, P.C. & Chen, Y.F. Enhancing the spectral shifts of localized surface plasmon resonance (LSPR) biosensors using DNA functionalized-gold nanorod conjugates. International Symposium on Chemical and Polyscale Technologies for Biomedical Applications and Environmental Sustainability (IsCPT), Taipei, Taiwan (Sep. 2015). (Poster presentation)

Kang, C.Y., Wu, L.A., Yu, L.H. & Chen, Y.F. Laser-induced thermophoresis for the detection of DNA. The 5th International Conference on Optofluidics, Taipei, Taiwan (July 2015). (Poster presentation)

Wu, L.A., Li, W.E., Lin, Y.T. & Chen, Y.F., DNA-guided assembly of three-dimensional nanostructures for surface-enhanced Raman spectroscopy. The 5th International Conference on Optofluidics, Taipei, Taiwan (July 2015). (Poster presentation)

Kang, C.Y., Wu, L.A., Yu, L.H. & Chen, Y.F. Detecting DNA by thermophoresis. The 20th Symposium of Association for Chemical Sensors in Taiwan (SCAST), Taoyuan, Taiwan (June 2015). (Poster presentation, Honorable Mention Poster Award)

Yu, L.H., Wang, C.H. & Chen, Y.F. Quantifying DNA and proteins using laser-induced thermophoresis. SPIE Photonics West, San Francisco, CA, USA (Feb. 2015). (Proc. SPIE 9310, Frontiers in Biological Detection: From Nanosensors to Systems VII, 93100F (Mar. 2015)) (Oral presentation)

Wu, L.A., Lin, Y.T. & Chen, Y.F. DNA-guided assembly of three-dimensional nanostructures for surface-enhanced Raman spectroscopy. SPIE Photonics West, San Francisco, CA, USA (Feb. 2015). (Proc. SPIE 9340, Plasmonics in Biology and Medicine XII, 934007 (Mar. 2015)) (Oral presentation)

Chuang, P.C., Liao, P.C. & Chen, Y.F. Enhancing the sensitivity of localized surface plasmon resonance (LSPR) biosensors using nanorods and DNA aptamers. SPIE Photonics West, San Francisco, CA, USA (Feb. 2015). (Proc. SPIE 9340, Plasmonics in Biology and Medicine XII, 93400T (Mar. 2015)) (Poster presentation)

Wu, L.A., Lin, Y.T. & Chen, Y.F. Surface-enhanced Raman spectroscopy using self-assembled three-dimensional DNA-nanoparticle superlattices. International Symposium of Chemical-Environmental-Biomedical Technology (IsCEBT), Taoyuan County, Taiwan (Sep. 2014). (Poster presentation, Excellent Poster Award)

Chuang, P.C., Liao, P.C. & Chen, Y.F. Enhancing the sensitivity of localized surface plasmon resonance (LSPR) biosensors using gold nanorod-DNA conjugates. International Symposium of Chemical-Environmental-Biomedical Technology (IsCEBT), Taoyuan County, Taiwan (Sep. 2014). (Oral presentation, Excellent Oral Presentation Award)

Yu, L.H. & Chen, Y.F. Optical Thermophoresis for the manipulation and detection of biomolecules. Conference on Lasers and Electro-Optics (CLEO). San Jose, CA, USA (June 2014). (Oral presentation)

Kang, P., Chen, Y.F. & Erickson, D. Label-free optofluidic biomolecular sensing using a photonic crystal nanotweezer: the wiggle assay. Micro Total Analysis Systems (µTAS), Freiburg, Germany (Oct. 2013).

Serey, X., Chen, Y.F., Fain, R., Kang, P. & Erickson, D. Overcoming the temperature increase hurdle in photonic crystal molecular tweezers. Conference on Lasers and Electro-Optics (CLEO), San Jose, CA, USA (May 2012).

Raghunathan, K., Chen, Y.F., Blaty, J., Juliar, B.A., Milstein, J.N. & Meiners, J.-C. Mechanics of DNA : sequence dependent elasticity. SPIE NanoScience + Engineering, San Diego, CA, USA (Aug. 2011). (Proc. SPIE 8097, 80970C (2011))

Raghunathan, K., Chen, Y.F., Milstein, J.N., Juliar, B.A., Blaty, J. & Meiners, J.-C. Insights into sequence dependent effects on DNA elasticity using single molecule techniques. Biophysical Society Meeting, Baltimore, USA (Mar. 2011).

Chen, Y.F., Serey, X., Mandal, S. & Erickson, D. Nanomanipulation using silicon nitride photonic crystal resonators. IEEE Winter Topicals, Keystone, CO, USA (Jan. 2011). (Oral presentation)

Chen, Y.F., Milstein, J.N. & Meiners, J.-C. Protein-mediated DNA looping in a fluctuating micromechanical environment. SPIE NanoScience + Engineering, San Diego, CA, USA (Aug. 2010) Proc. SPIE 7762, 77620B (2010).

Raghunathan, K., Chen, Y.F., Milstein, J.N., Juliar, B.A., Blaty, J. & Meiners, J.-C. Sequence dependent DNA elasticity. Midwest Single-Molecule Workshop, Washington University-St. Louis, St. Louis, MO, USA (July 2010).

Chen, Y.F., Milstein, J.N. & Meiners, J.-C. Fluctuating forces facilitate protein-mediated DNA looping. Biophysical Society Meeting, San Francisco, CA, USA (Feb. 2010). (Poster presentation)

Chen, Y.F., Raghunathan, K., Wilson, D.P. & Meiners, J.-C. Boundary-condition dependent elasticity of short double-stranded DNA molecules. SPIE NanoScience + Engineering, San Diego, CA, USA (Aug. 2009). Proc. SPIE 7400, 740003 (2009).

Chen, Y.F., Wilson, D.P., Raghunathan, K. & Meiners, J.-C. Elasticity of sub-micron DNA molecules studied with axial optical tweezers. Biophysical Society Meeting, Boston, MA, USA (Feb. 2009). (poster presentation)

Chen, Y.F., Blab, G.A., Wilson, D.P. & Meiners, J.-C. The effect of femtonewton forces on protein-mediated DNA looping. Biophysical Society Meeting, Long Beach, CA, USA (Feb. 2008). (Poster presentation)

Chen, Y.F., Blab, G.A. & Meiners, J.-C. Stretching sub-micron DNA fragments with optical tweezers. SPIE NanoScience + Engineering, San Diego, CA, USA (Aug. 2007). Proc. SPIE 6644, 664403 (2007). (invited paper)

Chen, Y.F., Blab, G.A. & Meiners, J.-C. Stretching sub-micron DNA fragments with optical tweezers. Biophysical Society Meeting, Baltimore, MD, USA (Feb. 2007). (Poster presentation)

 Blab, G.A., Wilson, D.P., Chen, Y.F. & Meiners, J.-C. Sequence-dependent variation of DNA stiffness and its role in modulating DNA-protein interaction. Biophysical Society Meeting, Baltimore, MD, USA (Feb. 2007). (Poster presentation)