Publications

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2021
Askari M, Kirkpatrick BC, Čižmár 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).
Leite IT, Turtaev S, Flaes DEBoonzaj, Čižmár T. Observing distant objects with a multimode fiber-based holographic endoscope. APL Photonics, 6, 036112 (2021).
Kizovský M, Pilát Z, Mylenko M, Hrouzek P, Kuta J, Skoupý R, Krzyžánek V, Hrubanová K, Adamczyk O, Ježek J, Bernatová S, Klementová T, Gjevik A, Šiler M, Samek O, Zemánek P. Raman Microspectroscopic Analysis of Selenium Bioaccumulation by Green Alga Chlorella vulgaris. Biosensors, 11, 115 (2021).
Bernatová S, Rebrošová K, Pilát Z, Šerý M, Gjevik A, Samek O, Ježek J, Šiler M, Kizovský M, Klementová T, Holá V, Růžička F, Zemánek P. Rapid detection of antibiotic sensitivity of Staphylococcus aureus by Raman tweezers. Eur. Phys. J. Plus, 136, 233 (2021).
Svak V, Flajšmanová J, Chvátal L, Šiler M, Jonáš A, Ježek J, Simpson SH, Zemánek P, Brzobohatý O. Stochastic dynamics of optically bound matter levitated in vacuum. Optica, 8, 220–229 (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).
2020
Pilát Z, Jonáš A, Pilátová J, Klementová T, Bernatová S, Šiler M, Maňka T, Kizovský M, Růžička F, Panůček 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, Šiler 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, Jonáš 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).
Flajšmanová J, Šiler M, Jedlička 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).
2019
Buryška T, Vašina M, Gielen F, Vaňáček P, van Vliet L, Ježek 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, Mušelík 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).
Rebrošová K, Šiler M, Samek O, Růžička F, Bernatová S, Ježek 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, Šerý M, Meyer T, Popp J, Čižmár 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, Šiler M, Weber K, Čižmár 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 Silicon Nanowires 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, Jonáš 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, Jonáš A, Šiler M, Kaňka J, Ježek J, Zemánek P. Tunable Soft-Matter Optofluidic Waveguides Assembled by Light. ACS Phot., 6, 403-410 (2019).
Paták A, Zouhar M, Řiháček T, Brzobohatý O, Geršl J, Campbell ACharvátov. Visualizing gravitational Bessel waves. Physical Review D, 100, 044050 (2019).
Pikálek T, Trägårdh J, Simpson S, Čižmár T. Wavelength dependent characterization of a multimode fibre endoscope. Opt. Express, 27, 28239–28253 (2019).
Bernatová S, Donato MGrazia, Ježek 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).
Sedláček P, Slaninová E, Enev V, Koller M, Nebesářová J, Márová I, Hrubanová K, Krzyžánek V, Samek O, Obruča S. What keeps polyhydroxyalkanoates in bacterial cells amorphous? A derivation from stress exposure experiments. Appl. Microbiol. Biotech., 103, 1905-1917 (2019).
2018
Procházka D, Mazura M, Samek O, Rebrošová K, Pořízka 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, Ježek J, Krátký S, Sobota J, Šiler M, Samek O, Buryška T, Vaňáček P, Damborský J, Prokop Z, Zemánek P. Detection of chloroalkanes by surface-enhanced raman spectroscopy in microfluidic chips. Sensors, 18, 3212 (2018).
Šiler 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, Ježek 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, Čižmár T. High-fidelity multimode fibre-based endoscopy for deep brain in vivo imaging. Light: Sci. Appl., 7, 92 (2018).
Pilát Z, Bernatová S, Ježek 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, Krzyžánek V, Nebesářová J, Růžička 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, Jonáš 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, Jonáš A, Buczynski R, Kiraz A. Optofluidic Dye Lasers Based on Holey Fibers: Modeling and Performance Analysis. J. Lightwave. Technol., 36, 4114-4122 (2018).
Rashid Z, Atay I, Soydan S, M. Yagci B, Jonáš 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, Čižmár T. Robustness of Light-Transport Processes to Bending Deformations in Graded-Index Multimode Waveguides. Phys. Rev. Lett., 120, 233901:1-5 (2018).
Baloch SKhan, Jonáš 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, Čižmár 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, Šiler M, Cuschieri A, Russell PSt. J, Čižmár 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, Šiler M, Jákl P, Kaňka 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).
2017
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).
Rebrošová K, Šiler M, Samek O, Růžička F, Bernatová S, Ježek J, Zemánek P, Holá V. Differentiation between Staphylococcus aureus and Staphylococcus epidermidis strains using Raman spectroscopy. Future Microbiology, 12, 10 (2017).
Karásek V, Šiler 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, Jonáš A, Ježek J, Zemánek P. Effects of Infrared Optical Trapping on Saccharomyces cerevisiae in a Microfluidic System. Sensors, 17, 2640 (2017).

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