Title: Biblio RTF Export
Author: Biblio 7.x

Khyrova M, Sepitka J, Cerny V, Lukes J, Slaninova E, Plichta T. Micro-compression analysis of biopolymer-producing bacteria using Cupriavidus necator as the model bacterium. The Cell Surface, 15, 100171 (2026).

Zemánek P, Bú? E, Zemánková T, Ducha? M, Li?ka V, Simpson SH, ?arbort M, Joná? A, ?iler M, Brzobohatý O. Nonequilibrium dynamics of optically levitated particles. Journal of Quantitative Spectroscopy and Radiative Transfer, 363, 110047 (2026).

Ruiz-Arce DD, Bene?ová M, Protiva V, Ko?i?ek J, Pilát Z, Je?ek J, Silhan L, Zemánek P, Jonas A, Sala L. Optomechanical Probes with Tailored Material and Shape Asymmetry Assembled Using DNA Origami. Nano Letters, 26, 2080?2088 (2026).

Bránecký M, Jiricek P, Houdkova J, Olivova L, Aboualigaledari N, Plichta T, Cech V. Oxidation resistance of organosilicon layered nanostructures synthesized by nonthermal plasma and plasma silica as a source of oxidizing agent. Applied Surface Science, 164972 (2026).

Zemánková T, ?arbort M, Jákl P, Je?ek J, ?iler M, Simpson SH, Zemánek P, Brzobohatý O. Unidirectional inter-axial coupling and spontaneous cooling in non-Hermitian dynamics of a levitated particle. Optica, OPTICA, 13, 1759?1768 (2026).

Coca-Lopez N, Alcolea-Rodriguez V, Bañares MA, Brockhauser S, Gorenflot J, Henderson A, Hildebrandt R, Jeliazkova N, Kochev N, Diz ELozano, Pilát Z, Polli D, Strömert P, Sturm C, Vanna R, Portela R. Artificial Intelligence-Powered Raman Spectroscopy through Open Science and FAIR Principles. ACS Nano, 19, 38189?38218 (2025).

Laznicka T, Kizovský M, Hrubanová K, Je?ek J, Mrazova K, Obru?a S, Samek O, Krzy?ánek V. Assembly for semi-correlation analysis of samples using cryogenic scanning electron microscopy and cryogenic Raman micro-spectroscopy. MEASUREMENT SCIENCE AND TECHNOLOGY, 36, 055903 (2025).

Po?ízka P, Holub D, Kizovský M, Samek O, Kaiser J, Kal?íková G. Chapter 26 - Hyphenated Raman and laser spectroscopy for the characterization of microplastics in tissues. Applied Raman Spectroscopy. (Singh VKumared.), Elsevier, s.441-451 (2025).

Adhvaryu S, Kiskova J, Piknova M, Malinicova L, Beck T, Buchtikova I, Kourilova X, Kizovský M, Samek O, Obru?a S, Pristas P. The characterization of halophilic polyhydroxyalkanoate-producing bacteria from brine in Solivar near Pre?ov (Slovakia). World Journal of Microbiology and Biotechnology, 41, 505 (2025).

Silhan L, Arregi JAnder, Plichta T, Vaculik O, Novotny J, ?erý M. Compact vacuum setup for laser induced plasma etching with optical emission spectrum monitoring. Journal of Vacuum Science & Technology B, 43, 034202 (2025).

Brzobohatý O, Chvátal L, Joná? A, Zemánek P. Dynamic formation of arrays of interacting optical spatial solitons under light-sheet illumination. Optics Letters, 50, 4318?4321 (2025).

Richterová V, Gjevik A, Vaculik O, Vejrosta J, Peka? M. Impact of Collagen on the Rheological and Transport Properties of Agarose Hydrogels. Gels, 11, 396 (2025).

Plichta T, Mrazova K, Richterova V, Khyrova M, Lukes J, Sepitka J. Multiscale analysis of mechanical and structural properties of agarose?silk fibroin hydrogels. International Journal of Biological Macromolecules, 330, 148133 (2025).

Ducha? M, ?iler M, Jákl P, Brzobohatý O, Rakhubovsky A, Filip R, Zemánek P. Nanomechanical state amplifier based on optical inverted pendulum. Communications Physics, 8, 276 (2025).

Vejrosta J, Cabalová S, Plichta T, ?erý M, Ma?ka T, Samek O, Zemánek P. Preparation and pilot experiments on microfluidic chip with surface acoustic waves, 23rd Slovak-Czech-Polish Optical Conference on Wave and Quantum Aspects of Contemporary Optics, (Pudi? D, Jandura D, Lettrichová Ied.), 2025, International Society for Optics and Photonics.

Heinke R, ?ilhan L, Ehrhardt M, Lorenz P, Zajadacz J, Bauer J, Arnold T, ?erý M, Zimmer K. Stability of masking materials for pattern transfer of lithographic masks into fused silica by atmospheric pressure plasma jet etching. Micro and Nano Engineering, 28, 100309 (2025).

Ghazalova M, Modlitbova P, Samek O, Rebro?ová K, ?iler M, Je?ek J, Pilát Z. Surface-Enhanced Raman Spectroscopy for Adenine Detection in Five Selected Bacterial Strains Under Stress Conditions. SENSORS, 25, 4629 (2025).

Jones P, Bernatová S, Kotsifaki DG. Biomedical Optics Express Feature Issue Introduction: Optical Manipulation and Its Applications (OMA) 2023. BIOMEDICAL OPTICS EXPRESS, 15, 1192-1194 (2024).

Silhan L, Novotny J, Plichta T, Je?ek J, Vaculik O, ?erý M. Design of Setup for Laser Induced Plasma Etching, 2024 37th International Vacuum Nanoelectronics Conference (IVNC), 2024.

Uhlirova H, Cizmar T, Pakan JMP, Gomes A. Exploiting Complex Media Photonics to Illuminate Brain's Hidden Depth. NEUROPHOTONICS, 11, S11501 (2024).

Plichta T, ?ech V. Functional Interlayers Developed to Control Interfacial Adhesion in Polymer Composites Reinforced with Glass and Basalt Fibers. Progress in Adhesion and Adhesives. Vol. 8.  (Mittal KLed.) Kap. 3, Wiley, s.119?188 (2024).

Michálková I, Colombel S, Gomes AD, Cizmar T. Generating Airy beams through multimode fibres. Optics Express, 32, 6838?6847 (2024).

Lee KSoo, Landry Z, Athar A, Alcolombri U, Ayutthaya PPramoj Na, Berry D, de Bettignies P, Cheng J-X, Csucs G, Cui L, Deckert V, Dieing T, Dionne J, Doskocil O, D'Souza G, Garcia-Timermans C, Gierlinger N, Goda K, Hatzenpichler R, Henshaw RJ, Huang WE, Iermak I, Ivleva NP, Kneipp J, Kubryk P, Kuesel K, Lee TKwon, Lee SSik, Ma B, Martinez-Perez C, Matousek P, Meckenstock RU, Min W, Mojzes P, Mueller O, Kumar N, Nielsen PHalkjaer, Notingher I, Palatinszky M, Pereira FC, Pezzotti G, Pilát Z, Plesinger F, Popp J, Probst AJ, Riva A, Saleh AAE, Samek O, Sapers HM, Schubert OT, Stubbusch AKM, Tadesse LF, Taylor GT, Wagner M, Wang J, Yin H, Yue Y, Zenobi R, Zini J, Sarkans U, Stocker R. MicrobioRaman: an open-access web repository for microbiological Raman spectroscopy data. NATURE MICROBIOLOGY, 9, (2024).

Khan A, Qadeer A, Wajid A, Ullah Q, Rahman SUr, Ullah K, Safi SZaman, Ticha L, Skalickova S, Chilala P, Bernatová S, Samek O, Horky P. Microplastics in animal nutrition: Occurrence, spread, and hazard in animals. JOURNAL OF AGRICULTURE AND FOOD RESEARCH, 17, 101258 (2024).

Li?ka V, Zemánková T, Jákl P, ?iler M, Simpson SH, Zemánek P, Brzobohatý O. PT-like phase transition and limit cycle oscillations in non-reciprocally coupled optomechanical oscillators levitated in vacuum. Nat. Phys., 1?7 (2024).

Parobková V, Holub D, Kizovský M, Kal?íková G, Rozman U, Urík M, Novotný K, Samek O, Zikmund T, Po?ízka P, Kaiser J. Raman microspectroscopy and laser-induced breakdown spectroscopy for the analysis of polyethylene microplastics in human soft tissues. Heliyon, 10, e37844 (2024).

Ma?ka T, ?iler M, Li?ka V, Zemánek P, ?erý M, Brzobohatý O. Simulation of optomechanical interaction of levitated nanoparticle with photonic crystal micro cavity. Opt. Express, 32, 7185?7196 (2024).

Uhlirova H, Stib?rek M, Pikálek T, Gomes A, Turtaev S, Kolbabkova P, Cizmar T. ``There's plenty of room at the bottom'': deep brain imaging with holographic endo-microscopy. NEUROPHOTONICS, 11, (2024).

Naz S, Chatha AManan Must, Khan NAhmed, Ullah Q, Zaman F, Qadeer A, Khan IMuhammad, Danabas D, Kiran A, Skalickova S, Bernatová S, Khan MZahoor, Horky P. Unraveling the ecotoxicological effects of micro and nano-plastics on aquatic organisms and human health. Frontiers in Environmental Science, 12, (2024).

Stib?rek M, Ondrá?ková P, Tuckova T, Turtaev S, ?iler M, Pikálek T, Jákl P, Gomes A, Krejci J, Kolbabkova P, Uhlirova H, Cizmar T. 110 mu m thin endo-microscope for deep-brain in vivo observations of neuronal connectivity, activity and blood flow dynamics. NATURE COMMUNICATIONS, 14, 1897 (2023).

Mouralova K, Benes L, Prokes T, Zahradnicek R, Fries J, Plichta T. 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).

Ozbakir Y, Jonas A, Kiraz A, Erkey C. Application of Aerogels in Optical Devices. Springer Handbook of Aerogels. (Aegerter MA, Leventis N, Koebel M, III SASteinered.), Springer International Publishing, Cham, s.1431?1454 (2023).

Koch SMarie, Freidank-Pohl C, Siontas O, Cortesao M, Mota A, Runzheimer K, Jung S, Rebro?ová K, ?iler M, Moeller R, Meyer V. Aspergillus niger as a cell factory for the production of pyomelanin, a molecule with UV-C radiation shielding activity. Frontiers in Microbiology, 14, (2023).

?iler M, Svak V, Joná? A, Simpson SH, Brzobohatý O, Zemánek P. Bayesian Estimation of Experimental Parameters in Stochastic Inertial Systems: Theory, Simulations, and Experiments with Objects Levitated in Vacuum. Phys. Rev. Appl., 19, 064059 (2023).

Li?ka V, Zemánková T, Svak V, Jákl P, Je?ek J, Bránecký M, Simpson SH, Zemánek P, Brzobohatý O. Cold damping of levitated optically coupled nanoparticles. Optica, 10, 1203?1209 (2023).

Cao H, ?i?már T, Turtaev S, Tyc T, Rotter S. Controlling light propagation in multimode fibers for imaging, spectroscopy, and beyond. Adv. Opt. Photon., 15, 524?612 (2023).

Arita Y, Simpson SH, Bruce GD, Wright EM, Zemánek P, Dholakia K. Cooling the optical-spin driven limit cycle oscillations of a levitated gyroscope. Commun. Phys., 6, 238 (2023).

Brodský J, Gablech I, Migliaccio L, Havlí?ek M, Donahue MJ, G?owacki ED. Downsizing the Channel Length of Vertical Organic Electrochemical Transistors. ACS Applied Materials & Interfaces, 15, 27002-27009 (2023).

Brodský J, Gablech I, Migliaccio L, Havli'cek M, Donahue MJJ, Glowacki EDD. Downsizing the Channel Length of Vertical Organic Electrochemical Transistors. ACS APPLIED MATERIALS & INTERFACES, 15, 27002-27009 (2023).

Siems K, Runzheimer K, Rebro?ová K, Etzbach L, Auerhammer A, Rehm A, Schwengers O, ?iler M, Samek O, R??i?ka F, Moeller R. Identification of staphyloxanthin and derivates in yellow-pigmented Staphylococcus capitis subsp. capitis. Frontiers in Microbiology, 14, (2023).

Pr?cha L, Lejeune M, Kizovský M, Materna-Mikmeková E. In-situ thermal Raman spectroscopy of single-layer graphene on different substrates. Materials Today Communications, 35, 105921 (2023).

Po?ízka P, Brunnbauer L, Porkert M, Rozman U, Marolt G, Holub D, Kizovský M, Bene?ová M, Samek O, Limbeck A, Kaiser J, Kal?íková G. Laser-based techniques: Novel tools for the identification and characterization of aged microplastics with developed biofilm. Chemosphere, 313, 137373 (2023).

Tarbajova V, Kolackova M, Chaloupsky P, Dobesova M, Capal P, Pilat Z, Samek O, Zemánek P, Svec P, Sterbova DSkopalova, Vaculovicova M, Richtera L, Pérez-de-Mora A, Adam V, Huska D. Physiological and transcriptome profiling of Chlorella sorokiniana: A study on azo dye wastewater decolorization. Journal of Hazardous Materials, 460, 132450 (2023).

Rebro?ová K, Bernatová S, ?iler M, Ma?ek J, Samek O, Je?ek J, Kizovský M, Holá V, Zemánek P, R??i?ka F. Rapid Identification of Pathogens Causing Bloodstream Infections by Raman Spectroscopy and Raman Tweezers. Microbiology Spectrum, 11, e00028-23 (2023).

Vaculík O, Bernatová S, Rebro?ová K, Samek O, ?ilhan L, ?i?ka FR?, ?erý M, ?iler M, ek JJe?, Zemánek P. Rapid identification of pathogens in blood serum via Raman tweezers in combination with advanced processing methods. Biomed. Opt. Express, 14, 6410?6421 (2023).

Volpe G, Maragò OM, Rubinsztein-Dunlop H, Pesce G, Stilgoe AB, Volpe G, Tkachenko G, Truong VGiang, Chormaic SNic, Kalantarifard F, Elahi P, Käll M, Callegari A, Marqués MI, Neves AAR, Moreira WL, Fontes A, Cesar CL, Saija R, Saidi A, Beck P, Eismann JS, Banzer P, Fernandes TFD, Pedaci F, Bowen WP, Vaippully R, Lokesh M, Roy B, Thalhammer-Thurner G, Ritsch-Marte M, García LPérez, Arzola AV, Castillo IPérez, Argun A, Muenker TM, Vos BE, Betz T, Cristiani I, Minzioni P, Reece PJ, Wang F, McGloin D, Ndukaife JC, Quidant R, Roberts RP, Laplane C, Volz T, Gordon R, Hanstorp D, Marmolejo JTello, Bruce GD, Dholakia K, Li T, Brzobohatý O, Simpson SH, Zemánek P, Ritort F, Roichman Y, Bobkova V, Wittkowski R, Denz C, Kumar GVPavan, Foti A, Donato MGrazia, Gucciardi PG, Gardini L, Bianchi G, Kashchuk AV, Capitanio M, Paterson L, Jones PH, Berg-Sørensen K, Barooji YF, Oddershede LB, Pouladian P, Preece D, Adiels CBeck, De Luca AChiara, Magazzù A, Ciriza DBronte, Iatì MAntonia, Swartzlander GA. Roadmap for optical tweezers. Journal of Physics: Photonics, 5, 022501 (2023).

Bene?ová M, Bernatová S, Mika F, Pokorná Z, Je?ek J, ?iler M, Samek O, R??i?ka F, Rebro?ová K, Zemánek P, Pilát Z. SERS-Tags: Selective Immobilization and Detection of Bacteria by Strain-Specific Antibodies and Surface-Enhanced Raman Scattering. Biosensors, 13, 182 (2023).

Plichta T, Sulc V, Ohlidal M, Cech V. Stable a-CSi:H films with a wide range of modulus of elasticity and low internal stress. Surface and Coatings Technology, 459, 129147 (2023).

Brzobohatý O, Ducha? M, Jákl P, Je?ek J, ?iler M, Zemánek P, Simpson SH. Synchronization of spin-driven limit cycle oscillators optically levitated in vacuum. Nature Communications, 14, 5441 (2023).

?ech V, Branecky M. Synthesis of thin-film materials using nonthermal plasma at a higher degree of dissociation. Plasma Processes and Polymers, 20, 2300019 (2023).

Hrabina J, Hosek M, Rerucha S, Cizek M, Pilat Z, Zucco M, Lazar J, Cip O. Absolute frequencies of H13C14N hydrogen cyanide transitions in the 1.5-µm region with the saturated spectroscopy and a sub-kHz scanning laser. Opt. Lett., 47, 5704?5707 (2022).

Arita Y, Bruce GD, Wright EM, Simpson SH, Zemánek P, Dholakia K. All-optical sub-Kelvin sympathetic cooling of a levitated microsphere in vacuum. Optica, 9, 1000?1002 (2022).

Violi IL, Martinez LP, Barella M, Zaza C, Chvátal L, Zemánek P, Gutierrez MV, Paredes MY, Scarpettini AF, Olmos-Trigo J, Pais VR, Noblega IDiaz, Cortès E, Saenz JJose, Bragas AV, Gargiulo J, Stefani FD. Challenges on optical printing of colloidal nanoparticles. J. Chem. Phys., 156, 034201 (2022).

Jákl P, ?iler M, Je?ek J, Cifuentes A, Trägårdh J, Zemánek P, Cizmar T. Endoscopic Imaging Using a Multimode Optical Fibre Calibrated with Multiple Internal References. Photonics, 9, 37 (2022).

Mouralova K, Michna S, Zahradnicek R, Bednar J, Plichta T, Fries J. 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, 1979-1991 (2022).

Meixner K, Daffert C, Dalnodar D, Mrazova K, Hrubanová K, Krzyzanek V, Nebesá?ová J, Samek O, Sedrlova Z, Slaninová E, Sedlá?ek P, Obru?a S, Fritz I. Glycogen, poly(3-hydroxybutyrate) and pigment accumulation in three Synechocystis strains when exposed to a stepwise increasing salt stress. JOURNAL OF APPLIED PHYCOLOGY, 34, 1227-1241 (2022).

B?tait? UG, Kupianskyi H, Cizmar T, Phillips DB. How to Build the ``Optical Inverse'' of a Multimode Fibre. Intelligent Computing, 2022, 9816026 (2022).

Du Y, Turtaev S, Leite IT, Lorenz A, Kobelke J, Wondraczek K, ?i?már T. Hybrid multimode - multicore fibre based holographic endoscope for deep-tissue neurophotonics. Light: Advanced Manufacturing, 3, 1 (2022).

Karalko A, Kesa P, Jelinek F, Sefc L, Je?ek J, Zemánek P, Grus T. In Vivo Contrast Imaging of Rat Heart with Carbon Dioxide Foam. SENSORS, 22, 5124 (2022).

Cifuentes A, Trägårdh J. A method for single particle tracking through a multimode fiber. Opt. Express, 30, 36055?36064 (2022).

Gomes AD, Turtaev S, Du Y, ?i?már T. Near perfect focusing through multimode fibres. Opt. Express, 30, 10645?10663 (2022).

Abdelfattah A, Ahuja S, Akkin T, Allu SRao, Boas DA, Brake J, Buckley EM, Campbell RE, Chen AI, Cheng X, ?i?már T, Costantini I, De Vittorio M, Devor A, Doran PR, Khatib MEl, Emiliani V, Fomin-Thunemann N, Fainman Y, Alfonso TFernández, Ferri CGL, Gilad A, Han X, Harris A, Hillman EMC, Hochgeschwender U, Holt MG, Ji N, Kiliç K, Lake EMR, Li L, Li T, Mächler P, Mesquita RC, Miller EW, Nadella KMNaga Srini, U. Nägerl V, Nasu Y, Nimmerjahn A, Ondrá?ková P, Pavone FS, Campos CPerez, Peterka DS, Pisano F, Pisanello F, Puppo F, Sabatini BL, Sadegh S, Sakad?ic S, Shoham S, Shroff SN, R. Silver A, Sims RR, Smith SL, Srinivasan VJ, Thunemann M, Tian L, Tian L, Troxler T, Valera A, Vaziri A, Vinogradov SA, Vitale F, Wang LV, Uhlí?ová H, Xu C, Yang C, Yang M-H, Yellen G, Yizhar O, Zhao Y. Neurophotonic tools for microscopic measurements and manipulation: status report. Neurophotonics, 9, (2022).

Holub D, Po?ízka P, Kizovský M, Prochazka D, Samek O, Kaiser J. The potential of combining laser-induced breakdown spectroscopy and Raman spectroscopy data for the analysis of wood samples. Spectrochimica Acta Part B: Atomic Spectroscopy, 195, 106487 (2022).

Mouralova K, Bednar J, Benes L, Plichta T, Prokes T, Fries J. Production of precision slots in copper foil using micro EDM. Scientific Reports, 12, 5023 (2022).

Rebro?ová K, Samek O, Kizovský M, Bernatová S, Holá V, R??i?ka F. Raman Spectroscopy-A Novel Method for Identification and Characterization of Microbes on a Single-Cell Level in Clinical Settings. FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY, 12, 866463 (2022).

Rebro?ová K, Bernatová S, ?iler M, Uhlirova M, Samek O, Je?ek J, Holá V, R??i?ka F, Zemánek P. Raman spectroscopy?a tool for rapid differentiation among microbes causing urinary tract infections. Analytica Chimica Acta, 1191, 339292 (2022).

Gigan S, Katz O, de Aguiar HB, Andresen ERavn, Aubry A, Bertolotti J, Bossy E, Bouchet D, Brake J, Brasselet S, Bromberg Y, Cao H, Chaigne T, Cheng Z, Choi W, ?i?már T, Cui M, Curtis VR, Defienne H, Hofer M, Horisaki R, Horstmeyer R, Ji N, LaViolette AK, Mertz J, Moser C, Mosk AP, Pégard NC, Piestun R, Popoff S, Phillips DB, Psaltis D, Rahmani B, Rigneault H, Rotter S, Tian L, Vellekoop IM, Waller L, Wang L, Weber T, Xiao S, Xu C, Yamilov A, Yang C, Y?lmaz H. Roadmap on wavefront shaping and deep imaging in complex media. Journal of Physics: Photonics, 4, 042501 (2022).

Novackova I, Hrabalova V, Slaninova E, Sedlacek P, Samek O, Koller M, Krzyzanek V, Hrubanova K, Mrazova K, Nebesarova J, Obruca S. The role of polyhydroxyalkanoates in adaptation of Cupriavidus necator to osmotic pressure and high concentration of copper ions. International Journal of Biological Macromolecules, 206, 977-989 (2022).

Pikálek T, Stib?rek M, Simpson S, Cizmar T, Trägårdh J. Suppression of the Non-Linear Background in a Multimode Fibre CARS Endoscope. Biomedical Optics Express, 13, 862?864 (2022).

Plichta T, Zahradnicek R, Cech V. Surface topography affects the nanoindentation data. Thin Solid Films, 745, 139105 (2022).

Plichta T, ?irjovová V, Zvonek M, Kalinka G, ?ech V. The Adhesion of Plasma Nanocoatings Controls the Shear Properties of GF/Polyester Composite. Polymers, 13, 593 (2021).

Ozbakir Y, Jonas A, Kiraz A, Erkey C. An aerogel-based photocatalytic microreactor driven by light guiding for degradation of toxic pollutants. Chemical Engineering Journal, 409, 128108 (2021).

Askari M, Kirkpatrick BC, ?i?már T, Di Falco A. All-optical manipulation of photonic membranes. Opt. Express, 29, 14260?14268 (2021).

Li S, Saunders C, Lum DJ, Murray-Bruce J, Goyal VK, Cizmar T, Phillips DB. Compressively sampling the optical transmission matrix of a multimode fibre. LIGHT-SCIENCE & APPLICATIONS, 10, 88 (2021).

Tu?ková T, ?iler M, Flaes DEBoonzajer, Jákl P, Turtaev S, Krátký S, Heintzmann R, Uhlí?ová H, ?i?már T. Computational image enhancement of multimode fibre-based holographic endo-microscopy: harnessing the muddy modes. Opt. Express, 29, 38206?38220 (2021).

Li S, Horsley SAR, Tyc T, Cizmar T, Phillips DB. Memory effect assisted imaging through multimode optical fibres. Nature Communications, 12, 3751 (2021).

Leite IT, Turtaev S, Flaes DEBoonzaj, ?i?már T. Observing distant objects with a multimode fiber-based holographic endoscope. APL Photonics, 6, 036112 (2021).

Jonas A, Pilát Z, Je?ek J, Bernatová S, Jedli?ka P, Aas M, Kiraz A, Zemánek P. Optically transportable optofluidic microlasers with liquid crystal cavities tuned by the electric field. ACS Applied Materials & Interfaces, 13, 50657?50667 (2021).

Cifuentes A, Pikálek T, Ondrá?ková P, Amezcua-Correa R, Antonio-Lopez JEnrique, Cizmar T, Trägårdh J. Polarization-resolved second-harmonic generation imaging through a multimode fiber. Optica, 8, 1065?1074 (2021).

Samek O, Bernatová S, Dohnal F. The potential of SERS as an AST methodology in clinical settings. NANOPHOTONICS, 10, 2537-2561 (2021).

Kizovský M, Pilát Z, Mylenko M, Hrouzek P, Kuta J, Skoupý R, Krzy?ánek V, Hrubanová K, Adamczyk O, Je?ek J, Bernatová S, Klementová T, Gjevik A, ?iler M, Samek O, Zemánek P. Raman Microspectroscopic Analysis of Selenium Bioaccumulation by Green Alga Chlorella vulgaris. Biosensors, 11, 115 (2021).

Bernatová S, Rebro?ová K, Pilát Z, ?erý M, Gjevik A, Samek O, Je?ek J, ?iler M, Kizovský M, Klementová T, Holá V, R??i?ka F, Zemánek P. Rapid detection of antibiotic sensitivity of Staphylococcus aureus by Raman tweezers. Eur. Phys. J. Plus, 136, 233 (2021).

Silveira BM, Pikálek T, Stib?rek M, Ondrá?ková P, Jákl P, Leite IT, ?i?már T. Side-view holographic endomicroscopy via a custom-terminated multimode fibre. Opt. Express, 29, 23083?23095 (2021).

Svak V, Flaj?manová J, Chvátal L, ?iler M, Joná? A, Je?ek J, Simpson SH, Zemánek P, Brzobohatý O. Stochastic dynamics of optically bound matter levitated in vacuum. Optica, 8, 220?229 (2021).

Simpson SH, Arita Y, Dholakia K, Zemánek P. Stochastic Hopf bifurcations in vacuum optical tweezers. Phys. Rev. A, 104, 043518 (2021).

Rudolf B, Du Y, Turtaev S, Leite IT, ?i?már T. Thermal stability of wavefront shaping using a DMD as a spatial light modulator. Opt. Express, 29, 41808?41818 (2021).

Flaes DBoonzajer, ?tolzová H, ?i?már T. Time-averaged image projection through a multimode fiber. Opt. Express, 29, 28005?28020 (2021).

Stellinga D, Phillips DB, Mekhail SPeter, Selyem A, Turtaev S, ?i?már T, Padgett MJ. Time-of-flight 3D imaging through multimode optical fibers. Science, 374, 1395-1399 (2021).

Polimeno P, Iati MA, C. Boschi DEsposti, Simpson SH, Svak V, Brzobohatý O, Zemánek P, Marago OM, Saija R. T-matrix calculations of spin-dependent optical forces in optically trapped nanowires. The European Physical Journal - Plus, 136, 86 (2021).

N?mcová A, Gonová D, Samek O, Sipiczki M, Breierová E, Márová I. The Use of Raman Spectroscopy to Monitor Metabolic Changes in Stressed Metschnikowia sp. Yeasts. Microorganisms, 9, 277 (2021).

N?mcová A, Szotkowski M, Samek O, Cagá?ová L, Sipiczki M, Márová I. Use of Waste Substrates for the Lipid Production by Yeasts of the Genus Metschnikowia?Screening Study. Microorganisms, 9, 2295 (2021).

Pilát Z, Joná? A, Pilátová J, Klementová T, Bernatová S, ?iler M, Ma?ka T, Kizovský M, R??i?ka F, Pan??ek R, Neugebauer U, Samek O, Zemánek P. Analysis of bacteriophage-host interaction by Raman tweezers. Analytical Chemistry, 92, 12304?12311 (2020).

Reversat A, Gaertner F, Merrin J, Stopp J, Tasciyan S, Aguilera J, de Vries I, Hauschild R, Hons M, Piel M, Callan-Jones A, Voituriez R, Sixt M. Cellular locomotion using environmental topography. Nature, 582, 582?585 (2020).

Arita Y, Simpson SH, Zemánek P, Dholakia K. Coherent oscillations of a levitated birefringent microsphere in vacuum driven by nonconservative rotation-translation coupling. Science Advances, 6, (2020).

Brzobohatý O, Chvátal L, ?iler M, Zemánek P. Complex colloidal structures with non-linear optical properties formed in an optical trap. Opt. Express, 28, 37700?37707 (2020).

Box SJ, Allen MP, Phillips DB, Simpson SH. Entropy Production in an Elementary, Light Driven Micro-Machine. Frontiers in Physics, 8, 538 (2020).

Valero AC, Kislov D, Gurvitz EA, Shamkhi HK, Pavlov AA, Redka D, Yankin S, Zemánek P, Shalin AS. Nanovortex-driven all-dielectric optical diffusion boosting and sorting concept for lab-on-a-chip platforms. Advanced Science, 7, (2020).

Rehman AU, Coskun UC, Rashid Z, Morova B, Joná? A, Erten A, Kiraz A. Size-based sorting of emulsion droplets in microfluidic channels patterned with laser-ablated guiding tracks. Analytical Chemistry, 92, 2597?2604 (2020).

Flaj?manová J, ?iler M, Jedli?ka P, Hrubý F, Brzobohatý O, Filip R, Zemánek P. Using the transient trajectories of an optically levitated nanoparticle to characterize a stochastic Duffing oscillator. Scientific Reports, 10, 14436 (2020).

Bury?ka T, Va?ina M, Gielen F, Va?á?ek P, van Vliet L, Je?ek J, Pilát Z, Zemánek P, Damborský J, Hollfelder F, Prokop Z. Controlled Oil/Water Partitioning of Hydrophobic Substrates Extending the Bioanalytical Applications of Droplet-Based Microfluidics. Anal. Chem., 91, 10008-10015 (2019).

Pavloková S, Mu?elík J, Sabadková D, Bernatová S, Samek O, Neumann D, Franc A. The effects of the treatment conditions on the dissolution profile of ethylcellulose coated pellets. Europ. J. of Pharmaceutical Sci., 132, 86-95 (2019).

Rebro?ová K, ?iler M, Samek O, R??i?ka F, Bernatová S, Je?ek J, Zemánek P, Holá V. Identification of ability to form biofilm in Candida parapsilosis and Staphylococcus epidermidis by Raman spectroscopy. Future Microbiology, 14, 509-517 (2019).

Trägårdh J, Pikálek T, ?erý M, Meyer T, Popp J, ?i?már T. Label-free CARS microscopy through a multimode fiber endoscope. Opt. Express, 27, 30055?30066 (2019).

Jonas A, Kochanczyk M, Ramirez AD, Speidel M, Florin E-L. Mechanical Contact Spectroscopy: Characterizing Nanoscale Adhesive Contacts via Thermal Forces. LANGMUIR, 35, 5809-5820 (2019).

Plidschun M, Weidlich S, ?iler M, Weber K, ?i?már T, Schmidt MA. Nanobore fiber focus trap with enhanced tuning capabilities. Opt. Express, 27, 36221?36230 (2019).

Donato MG, Brzobohatý O, Simpson SH, Irrera A, Leonardi AA, Faro MJLo, Svak V, Maragò OM, Zemánek P. Optical Trapping, Optical Binding, and Rotational Dynamics of SiliconNanowires in Counter-Propagating Beams. Nano Lett., 19, 342-352 (2019).

Brzobohatý O, Chvátal L, Zemánek P. Optomechanical properties of optically self-arranged colloidal waveguides. Opt. Lett., 44, 707-710 (2019).

Rashid Z, Erten A, Morova B, Muradoglu M, Jonas A, Kiraz A. Passive sorting of emulsion droplets with different interfacial properties using laser-patterned surfaces. MICROFLUIDICS AND NANOFLUIDICS, 23, 65 (2019).

Zemánek P, Volpe G, Joná? A, Brzobohatý O. Perspective on light-induced transport of particles: from optical forces to phoretic motion. Adv. Opt. Photon., 11, 577?678 (2019).

Arzola AV, Chvátal L, Jákl P, Zemánek P. Spin to orbital light momentum conversion visualized by particle trajectory. Sci. Rep., 9, 4127:1-7 (2019).

Brzobohatý O, Chvátal L, Joná? A, ?iler M, Ka?ka J, Je?ek J, Zemánek P. Tunable Soft-Matter Optofluidic Waveguides Assembled by Light. ACS Phot., 6, 403-410 (2019).

Paták A, Zouhar M, ?ihá?ek T, Brzobohatý O, Ger?l J, Campbell ACharvátov. Visualizing gravitational Bessel waves. Physical Review D, 100, 044050 (2019).

Pikálek T, Trägårdh J, Simpson S, ?i?már T. Wavelength dependent characterization of a multimode fibre endoscope. Opt. Express, 27, 28239?28253 (2019).

Bernatová S, Donato MGrazia, Je?ek J, Pilát Z, Samek O, Magazzu A, Maragò OM, Zemánek P, Gucciardi PG. Wavelength-Dependent Optical Force Aggregation of Gold Nanorods for SERS in a Microfluidic Chip. J. Phys. Chem. C, 123, 5608-5615 (2019).

Sedlá?ek P, Slaninová E, Enev V, Koller M, Nebesá?ová J, Márová I, Hrubanová K, Krzy?ánek V, Samek O, Obru?a S. What keeps polyhydroxyalkanoates in bacterial cells amorphous? A derivation from stress exposure experiments. Appl. Microbiol. Biotech., 103, 1905-1917 (2019).

Procházka D, Mazura M, Samek O, Rebro?ová K, Po?ízka P, Klus J, Procházková P, Novotný J, Novotný K, Kaiser J. Combination of laser-induced breakdown spectroscopy and Raman spectroscopy for multivariate classification of bacteria. Spec. Acta Part B, 139, 6-12 (2018).

Pilát Z, Kizovský M, Je?ek J, Krátký S, Sobota J, ?iler M, Samek O, Bury?ka T, Va?á?ek P, Damborský J, Prokop Z, Zemánek P. Detection of chloroalkanes by surface-enhanced raman spectroscopy in microfluidic chips. Sensors, 18, 3212 (2018).

?iler M, Ornigotti L, Brzobohatý O, Jákl P, Ryabov A, Holubec V, Zemánek P, Filip R. Diffusing up the Hill: Dynamics and Equipartition in Highly Unstable Systems. Phys. Rev. Lett., 121, 23601 (2018).

Damková J, Chvátal L, Je?ek J, Oulehla J, Brzobohatý O, Zemánek P. Enhancement of the `tractor-beam' pulling force on an optically bound structure. Light: Sci. Appl., 7, 17135 (2018).

Turtaev S, Leite IT, Altwegg-Boussac T, Pakan JMP, Rochefort NL, ?i?már T. High-fidelity multimode fibre-based endoscopy for deep brain in vivo imaging. Light: Sci. Appl., 7, 92 (2018).

Pilát Z, Bernatová S, Je?ek J, Kirchhoff J, Tannert A, Neugebauer U, Samek O, Zemánek P. Microfluidic Cultivation and Laser Tweezers Raman Spectroscopy of E-coli under Antibiotic Stress. Sensors, 18, 1623 (2018).

Hrubanová K, Krzy?ánek V, Nebesá?ová J, R??i?ka F, Pilát Z, Samek O. Monitoring Candida parapsilosis and Staphylococcus epidermidis Biofilms by a Combination of Scanning Electron Microscopy and Raman Spectroscopy. Sensors, 18, 4089 (2018).

Ozbakir Y, Joná? A, Kiraz A, Erkey C. A new type of microphotoreactor with integrated optofluidic waveguide based on solid-air nanoporous aerogels. Royal Society Open Science, 5, 180802 (2018).

Rashid Z, Joná? A, Buczynski R, Kiraz A. Optofluidic Dye Lasers Based on Holey Fibers: Modeling and PerformanceAnalysis. J. Lightwave. Technol., 36, 4114-4122 (2018).

Rashid Z, Atay I, Soydan S, M. Yagci B, Joná? A, Yilgor E, Kiraz A, Yilgor I. Reversible switching of wetting properties and erasable patterning of polymer surfaces using plasma oxidation and thermal treatment. Appl. Surf. Sci., 441, 841-852 (2018).

Flaes DEB, Stopka J, Turtaev S, de Boer JF, Tyc T, ?i?már T. Robustness of Light-Transport Processes to Bending Deformations in Graded-Index Multimode Waveguides. Phys. Rev. Lett., 120, 233901:1-5 (2018).

Baloch SKhan, Joná? A, Kiraz A, B. Alaca E, Erkey C. Sensitivity of compositional measurement of high-pressure fluid mixtures using microcantilever frequency response. Sensors Actuators A, 278, 111-126 (2018).

Vasquez-Lopez SA, Turcotte R, Koren V, Ploschner M, Padamsey Z, Booth M, ?i?már T, Emptage NJ. Subcellular spatial resolution achieved for deep-brain imaging in vivo using a minimally invasive multimode fiber. Light: Sci. Appl., 7, 110 (2018).

Leite IT, Turtaev S, Jiang X, ?iler M, Cuschieri A, Russell PSt. J, ?i?már T. Three-dimensional holographic optical manipulation through a high-numerical-aperture soft-glass multimode fibre. Nature Photon., 12, 33?39 (2018).

Svak V, Brzobohatý O, ?iler M, Jákl P, Ka?ka J, Zemánek P, Simpson SH. Transverse spin forces and non-equilibrium particle dynamics in a circularly polarized vacuum optical trap. Nature Commun., 9, 5453 (2018).

Gargiulo J, Violi IL, Cerrota S, Chvátal L, Cortès E, Perassi EM, Diaz F, Zemánek P, Stefani FD. Accuracy and Mechanistic Details of Optical Printing of Single Au and Ag Nanoparticles. ACS nano, 11, 9678?9688 (2017).

Rebro?ová K, ?iler M, Samek O, R??i?ka F, Bernatová S, Je?ek J, Zemánek P, Holá V. Differentiation between Staphylococcus aureus and Staphylococcus epidermidis strains using Raman spectroscopy. Future Microbiology, 12, 10 (2017).

Karásek V, ?iler M, Brzobohatý O, Zemánek P. Dynamics of an optically bound structure made of particles of unequal sizes. Opt. Lett., 42, 1436-1439 (2017).

Pilát Z, Joná? A, Je?ek J, Zemánek P. Effects of Infrared Optical Trapping on Saccharomyces cerevisiae in a Microfluidic System. Sensors, 17, 2640 (2017).

Hrubanová K, Krzy?ánek V, Samek O, Skoupý R, ?iler M, Je?ek J, Obru?a S, Zemánek P. Morphological and Production Changes in Planktonic and Biofilm Cells Monitored Using SEM and Raman Spectroscopy. Microscopy and Microanalysis, 23, S1 (2017).

Arzola AV, Villasante-Barahona M, Volke-Sepúlveda K, Jákl P, Zemánek P. Omnidirectional Transport in Fully Reconfigurable Two Dimensional Optical Ratchets. Phys. Rev. Lett., 118, 138002 (2017).

Simpson SH, Zemánek P, Maragò OM, Jones PH, Hanna S. Optical Binding of Nanowires. Nano Lett., 17, 3485-3492 (2017).

Obru?a S, Sedlá?ek P, Mravec F, Krzy?ánek V, Nebesá?ová J, Samek O, Ku?era D, Bene?ová P, Hrubanová K, Milerová M, Márová I. The presence of PHB granules in cytoplasm protects non-halophilic bacterial cells against the harmful impact of hypertonic environments. New Biotechnol., 39, 10 (2017).

Rebro?ová K, ?iler M, Samek O, R??i?ka F, Bernatová S, Holá V, Je?ek J, Zemánek P, Sokolová J, Petrá? P. Rapid identification of staphylococci by Raman spectroscopy. Sci. Rep., 7, 14846 (2017).

Joná? A, Pilát Z, Je?ek J, Bernatová S, Fo?t T, Zemánek P, Aas M, Kiraz A. Thermal tuning of spectral emission from optically trapped liquid-crystal droplet resonators. J. Opt. Soc. Am. B, 34, 1855-1864 (2017).

?iler M, Jákl P, Brzobohatý O, Ryabov A, Filip R, Zemánek P. Thermally induced micro-motion by inflection in optical potential. Sci. Rep., 7, 1697 (2017).

Mravec F, Obru?a S, Krzy?ánek V, Sedlá?ek P, Hrubanová K, Samek O, Ku?era D, Bene?ová P, Nebesá?ová J. Accumulation of PHA granules in Cupriavidus necator as seen by confocal fluorescence microscopy. FEMS Microbiology Letters, 363, 10 (2016).

Obru?a S, Sedlá?ek P, Krzy?ánek V, Mravec F, Hrubanová K, Samek O, Ku?era D, Bene?ová P, Márová I. Accumulation of Poly(3-hydroxybutyrate) Helps Bacterial Cells to Survive Freezing. PLoS ONE, 11, e0157778 (2016).

Brzobohatý O, Hernandez RJosue, Simpson SH, Mazzulla A, Cipparrone G, Zemánek P. Chiral particles in the dual-beam optical trap. Opt. Express, 24, 26382-26391 (2016).

?iler M, Je?ek J, Jákl P, Pilát Z, Zemánek P. Direct measurement of the temperature profile close to an optically trapped absorbing particle. Opt. Lett., 41, 870-873 (2016).

Antognozzi M, Bermingham CR, Harniman RL, Simpson SH, Senior J, Hayward R, Hoerber H, Dennis MR, Bekshaev AY, Bliokh KY, Nori F. Direct measurements of the extraordinary optical momentum and transverse spin-dependent force using a nano-cantilever. Nat. Phys., 12, 731-735 (2016).

Obru?a S, Sedlá?ek P, Mravec F, Samek O, Márová I. Evaluation of 3-hydroxybutyrate as an enzyme-protective agent against heating and oxidative damage and its potential role in stress response of poly(3-hydroxybutyrate) accumulating cells. Appl Microbiol Biotechnol, 100, 1365-1376 (2016).

Tomori Z, Ke?a P, Nikorovi? M, Ka?ka J, Jákl P, ?erý M, Bernatová S, Valu?ová E, Antalík M, Zemánek P. Holographic Raman tweezers controlled by Multimodal Natural User Interface. J. Opt., 18, 015602:1-9 (2016).

Hrubanová K, Samek O, Haroniková A, Bernatová S, Zemánek P, Márová I, Krzy?ánek V. Morphological and Production Changes in Stressed Red Yeasts Monitored Using SEM and Raman Spectroscopy. Microscopy and Microanalysis, 22, S3 (2016).

Filip R, Zemánek P. Noise-to-signal transition of a Brownian particle in the cubic potential: I. general theory. Journal of Optics, 18, 065401 (2016).

Zemánek P, ?iler M, Brzobohatý O, Jákl P, Filip R. Noise-to-signal transition of a Brownian particle in the cubic potential: II. optical trapping geometry. Journal of Optics, 18, 065402 (2016).

Irrera A, Magazzu A, Artoni P, Simpson SH, Hanna S, Jones PH, Priolo F, Gucciardi PGiuseppe, Maragò OM. Photonic Torque Microscopy of the Nonconservative Force Field for Optically Trapped Silicon Nanowires. Nano Lett., 16, 4181-4188 (2016).

Bzdek BR, Power RM, Simpson SH, Reid JP, Royall CP. Precise, contactless measurement of the surface tension of picolitre aerosol droplets. Chem. Sci., 7, 274-285 (2016).

Samek O, Obru?a S, ?iler M, Sedlá?ek P, Bene?ová P, Ku?era D, Márová I, Je?ek J, Bernatová S, Zemánek P. Quantitative Raman Spectroscopy Analysis of Polyhydroxyalkanoates Produced by Cupriavidus necator H16. Sensors, 16, 1808 (2016).

Simpson SH, Chvátal L, Zemánek P. Synchronization of colloidal rotors through angular optical binding. Phys. Rev. A, 93, 023842 (2016).

Ryabov A, Zemánek P, Filip R. Thermally-induced passage and current of particles in highly unstable optical potential. Phys. Rev.E, 16, 042108 (2016).

Baránek M, Bouchal P, ?iler M, Bouchal Z. Aberration resistant axial localization using a self-imaging of vortices. Opt. Express, 23, 15316?15331 (2015).

Chvátal L, Brzobohatý O, Zemánek P. Binding of a pair of Au nanoparticles in a wide Gaussianstanding wave. Opt. Rev., 22, 157-161 (2015).

Brzobohatý O, Arzola AV, ?iler M, Chvátal L, Jákl P, Simpson SH, Zemánek P. Complex rotational dynamics of multiple spheroidalparticles in a circularly polarized, dual beam trap. Opt. Express, 23, 7273-7287 (2015).

Krzy?ánek V, Hrubanová K, Samek O, Obru?a S, Márová I, Bernatová S, ?iler M, Zemánek P. Cryo-SEM and Raman Spectroscopy Study of the Involvement of Polyhydroxyalkanoates in Stress Response of Bacteria. Microscopy and Microanalysis, 21, 183-184 (2015).

Samek O, Bernatová S, Je?ek J, ?iler M, ?erý M, Krzy?ánek V, Hrubanová K, Zemánek P, Holá V, R??i?ka F. Identification of individual biofilm-forming bacterial cells using Raman tweezers. J. Biomed. Opt., 20, (2015).

Mlynariková K, Samek O, Bernatová S, R??i?ka F, Je?ek J, Haroniková A, ?iler M, Zemánek P, Holá V. Influence of Culture Media on Microbial Fingerprints Using Raman Spectroscopy. Sensors, 15, 29635-29647 (2015).

Hrubanová K, Bernatová S, Samek O, ?erý M, Zemánek P, Nebesá?ová J, R??i?ka F, Krzy?ánek V. Monitoring of Multilayered Bacterial Biofilm Morphology by Cryo-SEM for Raman Spectroscopy Measurements. Microscopy and Microanalysis, 21, 187-188 (2015).

Brzobohatý O, ?iler M, Trojek J, Chvátal L, Karásek V, Zemánek P. Non-spherical gold nanoparticles trapped in optical tweezers: shape matters. Opt. Express, 23, 8179-8189 (2015).

?iler M, Zemánek P. Optical trapping in secondary maxima of focused laser beam. J. Quant. Spectrosc. Radiat. Transf., 162, 114 - 121 (2015).

Burdiková Z, Svindrych Z, Hickey C, Wilkinson MG, Auty MAE, Samek O, Bernatová S, Krzy?ánek V, Periasamy A, Sheehan JJ. SEM and Raman Spectroscopy Applied to Biomass Analysis for Application in the Field of Biofuels and Food Industry. Dairy Sci. Technol., 95, 687-700 (2015).

Samek O, Haroniková A, Va?kovicová N, Hrubanová K, Je?ek J, Márová I, Krzy?ánek V, Zemánek P. SEM and Raman Spectroscopy Applied to Biomass Analysis for Application in the Field of Biofuels and Food Industry. Microscopy and Microanalysis, 21, 1775-1776 (2015).

Brzobohatý O, ?iler M, Trojek J, Chvátal L, Karásek V, Paták A, Pokorná Z, Mika F, Zemánek P. Three-Dimensional Optical Trapping of a Plasmonic Nanoparticle using Low Numerical Aperture Optical Tweezers. Sci. Rep., 5, 8106 (2015).

Box S, Debono L, Phillips DB, Simpson SH. Transitional behavior in hydrodynamically coupled oscillators. Phys. Rev. E, 91, 022916 (2015).

Po?ízka P, Procházková P, Procházka D, Sládková L, Novotný J, Petrilak M, Brada M, Samek O, Pilát Z, Zemánek P, Adam V, Kizek R, Novotný J, Kaiser J. Algal Biomass Analysis by Laser-Based Analytical Techniques?A Review. Sensors, 14, 17725-17752 (2014).

Samek O, Mlynariková K, Bernatová S, Je?ek J, Krzy?ánek V, ?iler M, Zemánek P, R??i?ka F, Holá V, Mahelová M. Candida parapsilosis Biofilm Identification by RamanSpectroscopy. Int. J. Mol. Sci., 15, 23924-23935 (2014).

Jákl P, Arzola AV, ?iler M, Chvátal L, Volke-Sepúlveda K, Zemánek P. Optical sorting of nonspherical and living microobjects in moving interference structures. Opt. Express, 22, 29746-29760 (2014).

Arzola AV, Jákl P, Chvátal L, Zemánek P. Rotation, oscillation and hydrodynamic synchronization of optically trapped oblate spheroidal microparticles. Opt. Express, 22, 16207-16221 (2014).

Arzola AV, Volke-Sepúlveda K, Mateos JL. Dynamical analysis of an optical rocking ratchet: Theoryand experiment. Phys. Rev. E, 87, 062910:1-9 (2013).

Brzobohatý O, Karásek V, ?iler M, Chvátal L, ?i?már T, Zemánek P. Experimental demonstration of optical transport, sorting and self-arrangement using a `tractor beam'. Nature Photon., 7, 123-127 (2013).

Bernatová S, Samek O, Pilát Z, ?erý M, Je?ek J, Jákl P, ?iler M, Krzy?ánek V, Zemánek P, Holá V, Dvo?á?ková M, R??i?ka F. Following the mechanisms of bacteriostatic versus bacericidal action using Raman spectroscopy. Molecules, 18, 13188-13199 (2013).

Tomori Z, Antalík M, Ke?a P, Ka?ka J, Jákl P, ?erý M, Bernatová S, Zemánek P. Holographic Raman tweezers controlled by hand gestures and voice commands. Optics and Photonics Journal, 3, 331-336 (2013).

?iler M, Chvátal L, Zemánek P. Metallic nanoparticles in a standing wave: optical forceand heating. J. Quant. Spectrosc. Radiat. Transf., 126, 84-90 (2013).

?iler M, Zemánek P. Optical forces in a non-diffracting vortex beam. J. Quant. Spectrosc. Radiat. Transf., 126, 78-83 (2013).

Brzobohatý O, ?iler M, Je?ek J, Jákl P, Zemánek P. Optical manipulation of aerosol droplets using aholographic dual and single beam trap. Opt. Lett., 38, 4601-4604 (2013).

Pilát Z, Je?ek J, ?erý M, Trtílek M, Nedbal L, Zemánek P. Optical trapping of microalgae at 735?1064 nm: Photodamage assessment. J. Photochem. Photobiol. B, 121, 27 - 31 (2013).

Aas M, Joná? A, Kiraz A, Brzobohatý O, Je?ek J, Pilát Z, Zemánek P. Spectral tuning of lasing emission from optofluidic droplet microlasers using optical stretching. Opt. Express, 21, 21380-21394 (2013).

Po?ízka P, Procházka D, Pilát Z, Kraj?arová L, Kaiser J, Malina R, Novotný J, Zemánek P, Je?ek J, ?erý M, Bernatová S, Krzy?ánek V, Dobranská K, Novotný K, Trtílek M, Samek O. Application of laser-induced breakdown spectroscopy to the analysis ofalgal biomass for industrial biotechnology. Spectrochim. Acta B, 74-75, 169-176 (2012).

Trojek J, Chvátal L, Zemánek P. Optical alignment and confinement of an ellipsoidalnanorod in optical tweezers: a theoretical study. J. Opt. Soc. Am. A, 29, 1224?1236 (2012).

?iler M, Jákl P, Brzobohatý O, Zemánek P. Optical forces induced behavior of a particle in a non-diffracting vortex beam. Opt. Express, 20, 24304-24319 (2012).

Pilát Z, Bernatová S, Je?ek J, ?erý M, Samek O, Zemánek P, Nedbal L, Trtílek M. Raman microspectroscopy of algal lipid bodies: beta-carotene quantification. J. Appl. Phycol., 24, 541-546 (2012).

?iler M, ?i?már T, Zemánek P. Speed enhancement of multi-particle chain in a travelingstanding wave. Appl. Phys. Lett., 100, 051103 (2012).

Samek O, Zemánek P, Joná? A, Telle HH. Characterization of oil-producing microalgae using Raman spectroscopy. Laser Phys. Lett., 8, 701?709 (2011).

Brzobohatý O, Karásek V, ?i?már T, Zemánek P. Dynamic size tuning of multidimensional optically boundmatter. Appl. Phys. Lett., 99, 101105 (2011).

?i?már T, Brzobohatý O, Dholakia K, Zemánek P. The holographic optical micro-manipulation system basedon counter-propagating beams. Laser Phys. Lett., 8, 50?56 (2011).

?iler M, Zemánek P. Parametric study of optical forces acting upon nanoparticles in a single, or a standing, evanescentwave. J. Opt., 13, 044016:1?9 (2011).

Brzobohatý O, Karásek V, ?iler M, Trojek J, Zemánek P. Static and dynamic behavior of two optically boundmicroparticles in a standing wave. Opt. Express, 19, 19613?19626 (2011).

Joná? A, De Luca AC, Pesce G, Rusciano G, Sasso A, Caserta S, Guido S, Marrucci G. Diffusive Mixing of Polymers Investigated by Raman Microspectroscopy andMicrorheology. Langmuir, 26, 14223-14230 (2010).

Brzobohatý O, ?i?már T, Karásek V, ?iler M, Dholakia K, Zemánek P. Experimental and theoretical determination of opticalbinding forces. Opt. Express, 18, 25389?25402 (2010).

Dholakia K, Zemánek P. Gripped by light: Optical binding. Rev. Mod. Phys., 82, 1767?1791 (2010).

?iler M, Zemánek P. Particle jumps between optical traps in a one-dimensionaloptical lattice. New. J. Phys., 12, 083001:1?20 (2010).

Samek O, Al-Marashi JFM, Telle HH. The potential of Raman spectroscopy for the identification of biofilm formation by Staphylococcusepidermidis. Laser Phys. Lett., 7, 378?383 (2010).

Samek O, Joná? A, Pilát Z, Zemánek P, Nedbal L, T?íska J, Kotas P, Trtílek M. Raman Microspectroscopy of Individual Algal Cells: Sensing Unsaturation of Storage Lipids in vivo. Sensors, 10, 8635?8651 (2010).

Bartsch TF, Fisinger S, Kochanczyk MD, Huang R, Joná? A, Florin E-L. Detecting Sequential Bond Formation Using Three-Dimensional Thermal Fluctuation Analysis. Chem. Phys. Chem., 10, 1541-1547 (2009).

Wu P, Huang R, Tischer C, Joná? A, Florin E-L. Direct Measurement of the Nonconservative Force Field Generated byOptical Tweezers. Phys. Rev. Lett., 103, 108101 (2009).

Trojek J, Karásek V, Zemánek P. Extreme axial optical force in a standing wave achieved by optimized object shape. Opt. Express, 17, 10472?10488 (2009).

Karásek V, Brzobohatý O, Zemánek P. Longitudinal optical binding of several sphericalparticles studied by the coupled dipole method. J. Opt. A: Pure Appl. Opt., 11, 034009 (2009).

Brzobohatý O, ?i?már T, Zemánek P. High quality quasi-Bessel beam generated by round-tipaxicon. Opt. Express, 16, 12688?12700 (2008).

Joná? A, Zemánek P. Light at work: The use of optical forces for particlemanipulation, sorting, and analysis. Electophoresis, 29, 4813?4851 (2008).

Karásek V, ?i?már T, Brzobohatý O, Zemánek P, Garcés-Chávez V, Dholakia K. Long-range one-dimensional longitudinal opticalbinding. Phys. Rev. Lett., 101, 143601 (2008).

Jákl P, ?i?már T, ?erý M, Zemánek P. Static optical sorting in a laser interference field. Appl. Phys. Lett., 92, 161110:1?3 (2008).

?iler M, ?i?már T, Joná? A, Zemánek P. Surface delivery of a single nanoparticle under movingevanescent standing-wave illumination. New. J. Phys., 10, 113010 (2008).

Karásek V, Zemánek P. Analytical description of longitudinal optical binding of two spherical nanoparticles. J. Opt. A: Pure Appl. Opt., 9, S215?S220 (2007).

Jákl P, ?erý M, Je?ek J, Li?ka M, Zemánek P. Axial optical trap stiffness influenced by retro-reflected beam. J. Opt. A: Pure Appl. Opt., 9, S251?S255 (2007).

Dholakia K, MacDonald MP, Zemánek P, ?i?már T. Cellular and colloidal separation using optical forces. Methods in Cell Biology, 82, 467?495 (2007).

?iler M, Zemánek P. Optical forces acting on a nanoparticle placed into an interference evanescent field. Opt. Commun., 275, 409?420 (2007).

?i?már T, Zemánek P. Optical tracking of spherical micro-objects in spatially periodic interference fields. Opt. Express, 15, 2262?2272 (2007).

Jákl P, ?erý M, Je?ek J, Zemánek P, Ormos P, Valkai S, Kelemen L. Opto-fluidic micromanipulation system based on integrated polymer waveguides. J. Optoel Adv. Mater., 9, 2148-2151 (2007).

Milne G, Dholakia K, McGloin D, Volke-Sepúlveda K, Zemánek P. Transverse particle dynamics in a Bessel beam. Opt. Express, 15, 13972?13987 (2007).

Karásek V, Dholakia K, Zemánek P. Analysis of optical binding in one dimension. Appl. Phys. B, 84, 149?156 (2006).

Je?ek J, ?i?már T, Ned?la V, Zemánek P. Formation of long and thin polymer fiber using nondiffracting beam. Opt. Express, 14, 8506-8515 (2006).

?iler M, ?i?már T, ?erý M, Zemánek P. Optical forces generated by evanescent standing waves and their usage for sub-micron particle delivery. Appl. Phys. B, 84, 157?165 (2006).

?i?már T, ?iler M, Zemánek P. An optical nanotrap array movable over a milimetre range. Appl. Phys. B, 84, 197?203 (2006).

?i?már T, ?iler M, ?erý M, Zemánek P, Garcés-Chávez V, Dholakia K. Optical sorting and detection of sub-micron objects in a motional standing wave. Phys. Rev. B, 74, 035105:1-6 (2006).

?i?már T, Kollárová V, Bouchal Z, Zemánek P. Sub-micron particle organization by self-imaging of non-diffracting beams. New. J. Phys., 8, 43 (2006).

?i?már T, Garcés-Chávez V, Dholakia K, Zemánek P. Optical conveyor belt for delivery of submicron objects. Appl. Phys. Lett., 86, 174101-1?174101-3 (2005).

Casaburi A, Pesce G, Zemánek P, Sasso A. Two-and three-beam interferometric optical tweezers. Opt. Commun., 251, 393?404 (2005).

Zemánek P, Karásek V, Sasso A. Optical forces acting on Rayleigh particle placed into interference field. Opt. Commun., 240, 401-415 (2004).

Jákl P, ?erý M, Je?ek J, Joná? A, Li?ka M, Zemánek P. Behaviour of an optically trapped probe approaching a dielectric interface. J Mod. Optics, 50, 1615-1625 (2003).

Zemánek P, Joná? A, Jákl P, ?erý M, Je?ek J, Li?ka M. Theoretical comparison of optical traps created by standing wave and single beam. Opt. Commun., 220, 401-412 (2003).

Zemánek P, Joná? A, Li?ka M. Simplified description of optical forces acting on a nanoparticle in the Gaussian standing wave. J. Opt. Soc. Am. A, 19, 1025-1034 (2002).

Joná? A, Zemánek P, Florin E-L. Single beam trapping in front of reflective surfaces. Opt. Lett., 26, 1466?1468 (2001).

Zemánek P, Joná? A, ?rámek L, Li?ka M. Optical trapping of nanoparticles and microparticles using Gaussian standing wave. Opt. Lett., 24, 1448?1450 (1999).

Zemánek P, Foot CJ. Atomic dipole trap formed by a blue detuned strong Gaussian standing wave. Opt. Commun., 146, 119?123 (1998).

Zemánek P, Joná? A, ?rámek L, Li?ka M. Optical trapping of Rayleigh particles using a Gaussian standing wave. Opt. Commun., 151, 273?285 (1998).