Articles
M. Khýrová, J. Šepitka, V. Černý, J. Lukeš, E. Slaninová, T. Plichta. Micro-compression analysis of biopolymer-producing bacteria using Cupriavidus necator as the model bacterium. The Cell Surface 16, (2026) 100171.
D. D. Ruiz Arce, M. Benešová, V. Protiva, J. Košíček, Z. Pilát, J. Ježek, L. Šilhan, P. Zemánek, A. Jomáš, L. Sala. Optomechanical Probes with Tailored Material and Shape Asymmetry Assembled Using DNA Origami. Nano Letters, (2026).
R. Heineke, L. Šilhan, J. Zajadacz, M. Ehrhardt, P. Lorenz, K. Zimmer, T. Arnold. Atmospheric pressure plasma jet pattern transfer using photolithographic masks. In: Twelfth European Seminar on Precision Optics Manufacturing, SPIE, (2025) p. 3.
M. Bránecký, P. Jiříček, J. Houdková, L. Olivová, N. Aboualigaledari, T. Plichta, V. Čech. Oxidation resistance of organosilicon layered nanostructures synthesized by nonthermal plasma and plasma silica as a source of oxidizing agent. Applied Surface Science 719, (2026) 164972.
T. Plichta, K. Mrázová, V. Richterová, M. Khýrová, J. Lukeš, J. Šepitka. Multiscale analysis of mechanical and structural properties of agarose–silk fibroin hydrogels. International Journal of Biological Macromolecules 330, (2025) 148133.
R. Heinke, L. Šilhan, M. Ehrhardt, P. Lorenz, J. Zajadacz, J. Bauer, T. Arnold, M. Šerý, K. Zimmer. Stability of masking materials for pattern transfer of lithographic masks into fused silica by atmospheric pressure plasma jet etching. Micro and Nano Engineering 28, (2025) 100309.
V. Richterová, A. Gjevik, O. Vaculík, J. Vejrosta, M. Pekař. Impact of Collagen on the Rheological and Transport Properties of Agarose Hydrogels. Gels 11, (2025) 396.
L. Šilhan, J. Novotný, T. Plichta, J. Ježek, O. Vaculík, M. Šerý. Design of Setup for Laser Induced Plasma Etching. In: 2024 37th International Vacuum Nanoelectronics Conference (IVNC), IEEE, (2024) pp. 1–2.
J. Vejrosta, S. Cabalová, T. Plichta, M. Šerý, T. Maňka, O. Samek, P. Zemánek. Preparation and pilot experiments on microfluidic chip with surface acoustic waves. In: 23rd Slovak-Czech-Polish Optical Conference on Wave and Quantum Aspects of Contemporary Optics, SPIE, (2025) p. 39.
M. Bránecký, O. Romanenko, N. Aboualigaledari, T. Plichta, J. Novák, A. Macková, V. Čech. Nanometer-scale interface instability in silicon oxide/polymer sandwich structures detected after two years. Materials Chemistry and Physics 341, (2025) 130935.
L. Šilhan, J. A. Arregi, T. Plichta, O. Vaculík, J. Novotný, M. Šerý. Compact vacuum setup for laser induced plasma etching with optical emission spectrum monitoring. Journal of Vacuum Science & Technology B 43 (3), (2025) 034202.
T. Plichta, V. Čech. Functional Interlayers Developed to Control Interfacial Adhesion in Polymer Composites Reinforced with Glass and Basalt Fibers. In: Progress in Adhesion and Adhesives, Wiley, (2024) pp. 119–187.
T. Maňka, M. Šiler, V. Liška, P. Zemánek, M. Šerý, O. Brzobohatý. Simulation of optomechanical interaction of levitated nanoparticle with photonic crystal micro cavity. Optics Express 32, (2024) 7185–7196.
K. Mouralová, L. Beneš, T. Prokeš, R. Zahradníček, J. Fries, T. Plichta. Analysis of the machinability of different types of sintered carbides with WEDM in both water and oil baths. The International Journal of Advanced Manufacturing Technology, (2023).
O. Vaculík, S. Bernatová, K. Rebrošová, O. Samek, L. Šilhan, F. Růžička, M. Šerý, M. Šiler, J. Ježek, P. Zemánek. Rapid identification of pathogens in blood serum via Raman tweezers in combination with advanced processing methods. Biomedical Optics Express 14, (2023) 6410.
T. Plichta, R. Zahradníček, V. Čech. Surface topography affects the nanoindentation data. Thin Solid Films 745, (2022) 139105.
T. Plichta, V. Šulc, M. Ohlídal, V. Čech. Stable a-CSi:H films with a wide range of modulus of elasticity and low internal stress. Surface and Coatings Technology, (2022) 129147.
K. Mouralová, J. Bednář, L. Beneš, T. Plichta, T. Prokeš, J. Fries. Production of precision slots in copper foil using micro EDM. Scientific Reports 12, (2022) 5023.
K. Mouralová, S. Michna, R. Zahradníček, J. Bednář, T. Plichta, J. Fries. Experimental analysis of microhardness changes of subsurface areas affected by WEDM. Proceedings of the Institution of Mechanical Engineers, Part E: Journal of Process Mechanical Engineering 236, (2022) 1979–1991.
T. Plichta, V. Širjovová, M. Zvonek, G. Kalinka, V. Čech. The adhesion of plasma nanocoatings controls the shear properties of GF/polyester composite. Polymers 13, (2021) 593.
S. Bernatová, K. Rebrošová, Z. Pilát, M. Šerý, A. Gjevik, O. Samek, J. Ježek, M. Šiler, M. Kizovský, T. Klementová, V. Holá, F. Růžička, P. Zemánek. Rapid detection of antibiotic sensitivity of Staphylococcus aureus by Raman tweezers. The European Physical Journal Plus 136, (2021) 233.
J. Trägårdh, T. Pikálek, M. Šerý, D. Akimov, T. Meyer, J. Popp, T. Cižmár. Coherent anti-Stokes Raman microscopy through a multimode fiber endoscope. In: Biomedical Spectroscopy, Microscopy, and Imaging, SPIE, (2020) p. 6.
J. Trägårdh, T. Pikálek, M. Šerý, T. Meyer, J. Popp, T. Čižmár. Label-free CARS microscopy through a multimode fiber endoscope. Optics Express 27, (2019) 30055.
O. Samek, S. Bernatová, J. Ježek, M. Šiler, M. Šerý, V. Krzyžánek, K. Hrubanová, P. Zemánek, V. Holá, F. Růžička. Identification of individual biofilm-forming bacterial cells using Raman tweezers. Journal of Biomedical Optics 20, (2015).
Z. Tomori, P. Keša, M. Nikorovič, J. Kaňka, P. Jákl, M. Šerý, S. Bernatová, E. Valušová, M. Antalík, P. Zemánek. Holographic Raman tweezers controlled by multi-modal natural user interface. Journal of Optics 18, (2015).
J. Lazar, P. Klapetek, M. Valtr, J. Hrabina, Z. Buchta, O. Číp, M. Čizek, J. Oulehla, M. Šerý. Short-range six-axis interferometer controlled positioning for scanning probe microscopy. Sensors 14, (2014) 877–886.
Z. Pilát, J. Ježek, M. Šerý, M. Trtílek, L. Nedbal, P. Zemánek. Optical trapping of microalgae at 735-1064 nm: Photodamage assessment. Journal of Photochemistry and Photobiology B: Biology 121, (2013) 27–31.
S. Bernatová, O. Samek, Z. Pilát, M. Šerý, J. Ježek, P. Jákl, M. Šiler, V. Krzyžánek, P. Zemánek, V. Holá, M. Dvorácková, F. Růžička. Following the mechanisms of bacteriostatic versus bactericidal action using Raman spectroscopy. Molecules 18, (2013) 13188–13199.
J. Lazar, J. Hrabina, M. Šerý, P. Klapetek, O. Číp. Multiaxis interferometric displacement measurement for local probe microscopy. Central European Journal of Physics 10, (2012) 225–231.
Z. Pilát, S. Bernatová, J. Ježek, M. Šerý, O. Samek, P. Zemánek, L. Nedbal, M. Trtílek. Raman microspectroscopy of algal lipid bodies: β-carotene quantification. Journal of Applied Phycology 24, (2012) 541–546.
P. Pořízka, D. Prochazka, Z. Pilát, L. Krajcarová, J. Kaiser, R. Malina, J. Novotný, P. Zemánek, J. Ježek, M. Šerý, M. Trtílek, O. Samek. Application of laser-induced breakdown spectroscopy to the analysis of algal biomass for industrial biotechnology. Spectrochimica Acta Part B: Atomic Spectroscopy 74–75, (2012) 169–176.
J. Lazar, O. Číp, M. Čížek, J. Hrabina, M. Šerý, P. Klapetek. Laser interferometric measuring system for positioning in nanometrology. WSEAS Transactions on Circuits and Systems 9, (2010) 660–669.
J. Lazar, P. Klapetek, O. Číp, M. Čížek, M. Šerý. Local probe microscopy with interferometric monitoring of the stage nanopositioning. Measurement Science and Technology 20, (2009).
P. Jákl, T. Čižmár, M. Šerý, P. Zemánek. Static optical sorting in a laser interference field. Applied Physics Letters 92, (2008).
P. Jákl, M. Šerý, J. Ježek, P. Zemánek, P. Ormos, S. Valkai, L. Kelemen. Opto-fluidic micromanipulation system based on integrated polymer waveguides. Journal of Optoelectronics and Advanced Materials 9, (2007) 2148–2151.
P. Jákl, M. Šerý, J. Ježek, M. Liška, P. Zemánek. Axial optical trap stiffness influenced by retro-reflected beam. Journal of Optics A: Pure and Applied Optics 9, (2007) S251.
T. Čižmár, M. Šiler, M. Šerý, P. Zemánek, V. Garcés-Chávez, K. Dholakia. Optical sorting and detection of submicrometer objects in a motional standing wave. Physical Review B 74, (2006) 035105.
M. Šiler, T. Čižmár, M. Šerý, P. Zemánek. Optical forces generated by evanescent standing waves and their usage for sub-micron particle delivery. Applied Physics B 84, (2006) 157–165.
P. Zemánek, A. Jonáš, P. Jákl, J. Ježek, M. Šerý, M. Liška. Theoretical comparison of optical traps created by standing wave and single beam. Optics Communications 220, (2003) 401–412.
P. Jákl, M. Šerý, J. Ježek, A. Jonáš, M. Liška, P. Zemánek. Behaviour of an optically trapped probe approaching a dielectric interface. Journal of Modern Optics 50, (2003) 1615–1625.
Patents
Šilhan, L., Šerý, M., Zemánek, P., Lazar, J. An adapter to create optical tweezers connectable to a microscope. Utility model or industrial design 310601. 4. 12. 2025.
Utility models
Šerý, M., Maňka, T., Zemánek, P., Samek, O., Ježek, J., Pilát, Z. Device for creating laser tweezers attachable to a Raman microscope. Utility model 33320. 25. 10. 2019.
Šerý, M., Ježek, J., Pilát, Z., Samek, O., Zemánek, P., Trtílek, M. Device for classification of photoautotrophic microorganism live cells. Utility model 25864. 16. 9. 2013.
Šerý, M., Zemánek, P., Lazar, J. Device for connecting radiating source to microscope objective. Utility model 21642. 17. 1. 2011.
Prototypes
Jákl, P., Šerý, M., Brzobohatý, O., Zemánek, P., Škereň, M. A system for creating microstructures using laser beams shaped by computer-generated holograms. Institute of Scientific Instruments of the CAS, v. v. i., IQS Group, a.s., 2025. Prototype APL-2025-20.
Ježek, J., Samek, O., Šilhan, L., Šerý, M. System for measurement and analysis of Raman spectra of biological samples. Institute of Scientific Instruments of the CAS, v. v. i., 2025. Prototype APL-2025-18.
Šilhan, L., Šerý, M., Vaculík, O., Hrabal, J., Snížek, J., Flek, O. High Spatial Resolution Projection System with Dynamically Variable Beam Angle. Institute of Scientific Instruments of the CAS, v. v. i., ALIS Tech s.r.o., 2024. Prototype APL-2024-30.
Šilhan, L., Šerý, M., Vaculík, O., Hrabal, J., Snížek, J., Flek, O. High Spatial Resolution Projection System with Fixed Beam Angle. Institute of Scientific Instruments of the CAS, v. v. i., ALIS Tech s.r.o., 2024. Prototype APL-2024-08.
Černý, Š., Chlumská, J., Kandra, M., Matějka, M., Stříteský, S., Těthal, T., Jákl, P., Plichta, T., Šerý, M., Šilhan, L., Šilhanová, D., Vaculík, O. Prototype device for laser beam writing using 2PP. Institute of Scientific Instruments of the CAS, v. v. i., IQS nano s.r.o., 2023. Prototype APL-2023-12.
Ježek, J., Šilhan, L., Šerý, M., Matějka, T., Rataj, T., Trtílek, M. ROMED - Robotic system for detection of metabolic substances and pathogens in plants. Institute of Scientific Instruments of the CAS, v. v. i., Photon Systems Instruments (PSI), spol. s r.o., 2023. Prototype APL-2023-06.
Oulehla, J., Šilhanová, D., Šerý, M. Diffractive dispersive element for hyperspectral imaging. Institute of Scientific Instruments of the CAS, v. v. i., 2022. Prototype APL-2022-18.
Šerý, M., Maňka, T., Rataj, T., Veselka, D., Trtílek, M. High resolution hyperspectral camera with limited wavelength range. Institute of Scientific Instruments of the CAS, v. v. i., PSI (Photon Systems Instruments), spol. s r.o., 2022. Prototype APL-2022-19.
Šerý, M., Maňka, T., Vaculík, O., Šilhan, L., Rataj, T., Trtílek, M. High resolution hyperspectral camera with a wavelength range of 350-1100 nm. Institute of Scientific Instruments of the CAS, v. v. i., PSI (Photon Systems Instruments), spol. s r.o., 2022. Prototype APL-2022-20.
Šerý, M., Maňka, T., Rataj, T., Veselka, D., Trtílek, M. Optimized light source for hyperspectral imaging and wavelength range 350-1100 nm. Institute of Scientific Instruments of the CAS, v. v. i., PSI (Photon Systems Instruments), spol. s r.o., 2022. Prototype APL-2022-21.
Šerý, M., Lazar, J., Zemánek, P. Laser microscope adapter. Institute of Scientific Instruments of the CAS, v. v. i., 2016. Prototype APL-2016-12.
Functional Specimens
Šerý, M., Šilhan, L. Acousto-optic deflection system. Institute of Scientific Instruments of the CAS, v. v. i., 2024. Functional Specimen APL-2024-27.
Šilhan, L., Šerý, M., Vaculík, O., Hrabal, J., Snížek, J., Flek, O. High Spatial Resolution Projection System with Dynamically Generated Image. Institute of Scientific Instruments of the CAS, v. v. i., ALIS Tech s.r.o., 2024. Functional Specimen APL-2024-31.
Vejrosta, J., Bernatová, S., Ježek, J., Cabalová, S., Šerý, M., Plichta, T., Horký, P., Skaličková, S. Sorting microfluidic platform. Institute of Scientific Instruments of the CAS, v. v. i., 2024. Functional Specimen APL-2024-13.
Ježek, J., Šilhan, L., Šerý, M., Trtílek, M., Rataj, T., Matějka, T. Compact measuring head for excitation and acquisition of Raman spectra. Institute of Scientific Instruments of the CAS, v. v. i., PSI (Photon Systems Instruments), spol. s r.o., 2022. Functional Specimen APL-2022-22.
Šilhan, L., Šerý, M., Ježek, J., Trtílek, M., Rataj, T., Matějka, T. Raman spectrometer for plant analysis. Institute of Scientific Instruments of the CAS, v. v. i., PSI (Photon Systems Instruments), spol. s r.o., 2022. Functional Specimen APL-2022-23.
Maňka, T., Šerý, M. Modification of holder for electroplating of microelectromechanical systems. Institute of Scientific Instruments of the CAS, v. v. i., 2018. Functional Specimen APL-2018-15.
Šilhan, L., Šerý, M., Maňka, T. Spectroscopic system for deep reactive ion etching system. Institute of Scientific Instruments of the CAS, v. v. i., 2018. Functional Specimen APL-2018-16.
Maňka, T., Šerý, M. System for wet etching of Si substrates. Institute of Scientific Instruments of the CAS, v. v. i., 2017. Functional Specimen APL-2017-09.
Maňka, T., Šerý, M. Interferometric measuring system for deep reactive ion etching system. Institute of Scientific Instruments of the CAS, v. v. i., 2017. Functional Specimen APL-2017-08.
Šerý, M., Bernatová, S., Jákl, P., Kaňka, J., Zemánek, P. Holographical optical micromanipulation system combined with Raman micro-spectrometer. Institute of Scientific Instruments of the CAS, v. v. i., 2011. Functional Specimen 2011-12.
Šerý, M., Jákl, P. Optomechanical system of the laser beam deflection in the optical sorter. Institute of Scientific Instruments of the CAS, v. v. i., 2011. Functional Specimen 2011-13.
Šerý, M., Zemánek, P. Attachment to a light microscope for an optical sorting of microobjects. Institute of Scientific Instruments of the CAS, v. v. i., 2010. Functional Specimen 201009.
Jonáš, A., Ježek, J., Šerý, M. System for Raman microspectroscopy of optically trapped studied specimen. Institute of Scientific Instruments of the CAS, v. v. i., 2009. Functional Specimen 4443-1.
Šerý, M., Trtílek, M. Compact laser system for micromanipulation with micro-objects. Institute of Scientific Instruments of the CAS, v. v. i., 2009. Functional Specimen 4841.
