@article {3753,
	title = {Cold damping of levitated optically coupled nanoparticles},
	journal = {Optica},
	volume = {10},
	year = {2023},
	pages = {1203{\textendash}1209},
	keywords = {LF, MF},
	doi = {10.1364/OPTICA.496072},
	url = {https://opg.optica.org/optica/abstract.cfm?URI=optica-10-9-1203},
	author = {Vojt{\v e}ch Li{\v s}ka and Tereza Zem{\'a}nkov{\'a} and Vojtech Svak and Petr J{\'a}kl and Jan Je{\v z}ek and Martin Br{\'a}neck{\'y} and Stephen H. Simpson and Pavel Zem{\'a}nek and Oto Brzobohat{\'y}}
}
@article {3479,
	title = {Computational image enhancement of multimode fibre-based holographic endo-microscopy: harnessing the muddy modes},
	journal = {Opt. Express},
	volume = {29},
	year = {2021},
	month = {Nov},
	pages = {38206{\textendash}38220},
	keywords = {KF, MF},
	doi = {10.1364/OE.434848},
	url = {http://www.osapublishing.org/oe/abstract.cfm?URI=oe-29-23-38206},
	author = {Tereza Tu{\v c}kov{\'a} and Martin {\v S}iler and DE Boonzajer Flaes and Petr J{\'a}kl and Sergey Turtaev and Stanislav Kr{\'a}tk{\'y} and Rainer Heintzmann and Hana Uhl{\'\i}{\v r}ov{\'a} and Tom{\'a}{\v s} {\v C}i{\v z}m{\'a}r}
}
@article {3471,
	title = {Side-view holographic endomicroscopy via a custom-terminated multimode fibre},
	journal = {Opt. Express},
	volume = {29},
	year = {2021},
	pages = {23083{\textendash}23095},
	abstract = {<p>Microendoscopes based on optical fibres have recently come to the fore as promising candidates allowing in-vivo observations of otherwise inaccessible biological structures in animal models. Despite being still in its infancy, imaging can now be performed at the tip of a single multimode fibre, by relying on powerful holographic methods for light control. Fibre based endoscopy is commonly performed en face, resulting in possible damage of the specimen owing to the direct contact between the distal end of the probe and target. On this ground, we designed an all-fibre probe with an engineered termination that reduces compression and damage to the tissue under investigation upon probe insertion. The geometry of the termination brings the field of view to a plane parallel to the fibre\&amp;\#x2019;s longitudinal direction, conveying the probe with off-axis imaging capabilities. We show that its focusing ability also benefits from a higher numerical aperture, resulting in imaging with increased spatial resolution. The effect of probe insertion was investigated inside a tissue phantom comprising fluorescent particles suspended in agarose gel, and a comparison was established between the novel side-view probe and the standard en face fibre probe. This new concept paves the way to significantly less invasive deep-tissue imaging.</p>},
	keywords = {KF, MF},
	doi = {10.1364/OE.426235},
	url = {http://www.osapublishing.org/oe/abstract.cfm?URI=oe-29-15-23083},
	author = {Beatriz M. Silveira and Tom{\'a}{\v s} Pik{\'a}lek and Miroslav Stib{\r u}rek and Petra Ondr{\'a}{\v c}kov{\'a} and Petr J{\'a}kl and Ivo T. Leite and Tom{\'a}{\v s} {\v C}i{\v z}m{\'a}r}
}
@article { ArzolaSR19,
	title = {Spin to orbital light momentum conversion visualized by particle trajectory},
	journal = {Sci. Rep.},
	volume = {9},
	year = {2019},
	pages = {4127:1-7},
	keywords = {LF, MF},
	doi = {10.1038/s41598-019-40475-z},
	author = {Alejandro V. Arzola and Luk{\'a}{\v s} Chv{\'a}tal and P J{\'a}kl and P. Zem{\'a}nek}
}
@article {SilerPRL18,
	title = {Diffusing up the Hill: Dynamics and Equipartition in Highly Unstable Systems},
	journal = {Phys. Rev. Lett.},
	volume = {121},
	year = {2018},
	pages = {23601},
	keywords = {LF, MF},
	doi = {10.1103/PhysRevLett.121.230601},
	author = {M {\v S}iler and Ornigotti, L. and Oto Brzobohat{\'y} and P J{\'a}kl and Artem Ryabov and Holubec, V. and P. Zem{\'a}nek and Radim Filip}
}
@article {SvakNC18,
	title = {Transverse spin forces and non-equilibrium particle dynamics in a circularly polarized vacuum optical trap},
	journal = {Nature Commun.},
	volume = {9},
	year = {2018},
	pages = {5453},
	keywords = {LF, MF},
	doi = {10.1038/s41467-018-07866-8},
	author = {Vojtech Svak and Oto Brzobohat{\'y} and M {\v S}iler and P J{\'a}kl and J. Ka{\v n}ka and P. Zem{\'a}nek and S. H. Simpson}
}
@article { ArzolaPRL17,
	title = {Omnidirectional Transport in Fully Reconfigurable Two Dimensional Optical Ratchets},
	journal = {Phys. Rev. Lett.},
	volume = {118},
	year = {2017},
	pages = {138002},
	keywords = {LF, MF},
	doi = {10.1103/PhysRevLett.118.138002},
	author = {Alejandro V. Arzola and Villasante-Barahona, Mario and Karen Volke-Sep{\'u}lveda and P J{\'a}kl and P. Zem{\'a}nek}
}
@article { SilerSR17,
	title = {Thermally induced micro-motion by inflection in optical potential},
	journal = {Sci. Rep.},
	volume = {7},
	year = {2017},
	pages = {1697},
	keywords = {LF, MF},
	issn = {2045-2322},
	doi = {10.1038/s41598-017-01848-4},
	author = {M {\v S}iler and P J{\'a}kl and Oto Brzobohat{\'y} and Artem Ryabov and Radim Filip and P. Zem{\'a}nek}
}
@article { SilerOL16,
	title = {Direct measurement of the temperature profile close to an optically trapped absorbing particle},
	journal = {Opt. Lett.},
	volume = {41},
	year = {2016},
	pages = {870-873},
	keywords = {MF},
	doi = {10.1364/OL.41.000870},
	author = {M {\v S}iler and J Je{\v z}ek and P J{\'a}kl and Z. Pil{\'a}t and P. Zem{\'a}nek}
}
@article { TomoriJOpt16,
	title = {Holographic Raman tweezers controlled by Multimodal Natural User Interface},
	journal = {J. Opt.},
	volume = {18},
	year = {2016},
	pages = {015602:1-9},
	keywords = {MF},
	doi = {10.1088/2040-8978/18/1/015602},
	author = {Z. Tomori and P. Ke{\v s}a and M. Nikorovi{\v c} and J. Ka{\v n}ka and P J{\'a}kl and M. {\v S}er{\'y} and Silva Bernatov{\'a} and E. Valu{\v s}ov{\'a} and M. Antal{\'\i}k and P. Zem{\'a}nek}
}
@article { ZemanekJOpt16,
	title = {Noise-to-signal transition of a Brownian particle in the cubic potential: II. optical trapping geometry},
	journal = {Journal of Optics},
	volume = {18},
	number = {6},
	year = {2016},
	pages = {065402},
	keywords = {MF},
	doi = {10.1088/2040-8978/18/6/065401},
	author = {P. Zem{\'a}nek and M {\v S}iler and Oto Brzobohat{\'y} and P J{\'a}kl and Radim Filip}
}
@article { BrzobohatyOE15b,
	title = {Complex rotational dynamics of multiple spheroidal	particles in a circularly polarized, dual beam trap},
	journal = {Opt. Express},
	volume = {23},
	year = {2015},
	pages = {7273-7287},
	keywords = {MF},
	doi = {10.1364/OE.23.007273},
	author = {Oto Brzobohat{\'y} and Alejandro V. Arzola and M {\v S}iler and Luk{\'a}{\v s} Chv{\'a}tal and P J{\'a}kl and S. H. Simpson and P. Zem{\'a}nek}
}
@article { JaklOE14,
	title = {Optical sorting of nonspherical and living microobjects in moving interference structures},
	journal = {Opt. Express},
	volume = {22},
	year = {2014},
	pages = {29746-29760},
	keywords = {MF},
	doi = {10.1364/OE.22.029746},
	author = {P J{\'a}kl and Alejandro V. Arzola and M {\v S}iler and Luk{\'a}{\v s} Chv{\'a}tal and Karen Volke-Sep{\'u}lveda and P. Zem{\'a}nek}
}
@article { ArzolaOE14,
	title = {Rotation, oscillation and hydrodynamic synchronization of optically trapped oblate spheroidal microparticles},
	journal = {Opt. Express},
	volume = {22},
	year = {2014},
	pages = {16207-16221},
	keywords = {MF},
	doi = {10.1364/OE.22.016207},
	author = {Alejandro V. Arzola and P J{\'a}kl and Luk{\'a}{\v s} Chv{\'a}tal and P. Zem{\'a}nek}
}
@article { BernatovaMol13,
	title = {Following the mechanisms of bacteriostatic versus bacericidal action using Raman spectroscopy},
	journal = {Molecules},
	volume = {18},
	year = {2013},
	pages = {13188-13199},
	keywords = {MF},
	doi = {10.3390/molecules181113188},
	author = {Silva Bernatov{\'a} and O. Samek and Z. Pil{\'a}t and M. {\v S}er{\'y} and J Je{\v z}ek and P J{\'a}kl and M {\v S}iler and V. Krzy{\v z}{\'a}nek and P. Zem{\'a}nek and V. Hol{\'a} and M. Dvo{\v r}{\'a}{\v c}kov{\'a} and F. R{\r u}{\v z}i{\v c}ka}
}
@article { TomoriOPJ13,
	title = {Holographic Raman tweezers controlled by hand gestures and voice commands},
	journal = {Optics and Photonics Journal},
	volume = {3},
	year = {2013},
	pages = {331-336},
	keywords = {MF},
	doi = {10.4236/opj.2013.32B076},
	author = {Z. Tomori and M. Antal{\'\i}k and P. Ke{\v s}a and J. Ka{\v n}ka and P J{\'a}kl and M. {\v S}er{\'y} and Silva Bernatov{\'a} and P. Zem{\'a}nek}
}
@article { BrzobohatyOL13,
	title = {Optical manipulation of aerosol droplets using a	holographic dual and single beam trap},
	journal = {Opt. Lett.},
	volume = {38},
	number = {22},
	year = {2013},
	pages = {4601-4604},
	keywords = {MF},
	doi = {10.1364/OL.38.004601},
	author = {Oto Brzobohat{\'y} and M {\v S}iler and J Je{\v z}ek and P J{\'a}kl and P. Zem{\'a}nek}
}
@article { SilerOE12,
	title = {Optical forces induced behavior of a particle in a non-diffracting vortex beam},
	journal = {Opt. Express},
	volume = {20},
	year = {2012},
	pages = {24304-24319},
	keywords = {MF},
	doi = {10.1364/OE.20.024304},
	author = {M {\v S}iler and P J{\'a}kl and Oto Brzobohat{\'y} and P. Zem{\'a}nek}
}
@article { JaklAPL08,
	title = {Static optical sorting in a laser interference field},
	journal = {Appl. Phys. Lett.},
	volume = {92},
	number = {16},
	year = {2008},
	pages = {161110:1{\textendash}3},
	keywords = {MF},
	issn = {0003-6951},
	doi = {10.1063/1.2913759},
	author = {P J{\'a}kl and Tom{\'a}{\v s} {\v C}i{\v z}m{\'a}r and M. {\v S}er{\'y} and P. Zem{\'a}nek}
}
@article { JaklJOPAA07,
	title = {Axial optical trap stiffness influenced by retro-reflected beam},
	journal = {J. Opt. A: Pure Appl. Opt.},
	volume = {9},
	number = {8, Sp. Iss. SI},
	year = {2007},
	pages = {S251{\textendash}S255},
	keywords = {MF},
	issn = {1464-4258},
	doi = {10.1088/1464-4258/9/8/S19},
	author = {P J{\'a}kl and M. {\v S}er{\'y} and J Je{\v z}ek and M. Li{\v s}ka and P. Zem{\'a}nek}
}
@article { JaklJOAM07,
	title = {Opto-fluidic micromanipulation system based on integrated polymer waveguides},
	journal = {J. Optoel Adv. Mater.},
	volume = {9},
	year = {2007},
	pages = {2148-2151},
	keywords = {MF},
	author = {P J{\'a}kl and M. {\v S}er{\'y} and J Je{\v z}ek and P. Zem{\'a}nek and Ormos, P. and Valkai, S. and Kelemen, L.}
}
@article {JaklJMO03,
	title = {Behaviour of an optically trapped probe approaching a dielectric interface},
	journal = {J Mod. Optics},
	volume = {50},
	year = {2003},
	pages = {1615-1625},
	keywords = {MF},
	doi = {10.1080/09500340308235235},
	author = {P J{\'a}kl and M. {\v S}er{\'y} and J Je{\v z}ek and A. Jon{\'a}{\v s} and M. Li{\v s}ka and P. Zem{\'a}nek}
}
@article {ZemanekOPTCOMM03,
	title = {Theoretical comparison of optical traps created by standing wave and single beam},
	journal = {Opt. Commun.},
	volume = {220},
	year = {2003},
	pages = {401-412},
	keywords = {MF},
	doi = {10.1016/S0030-4018(03)01409-3},
	author = {P. Zem{\'a}nek and A. Jon{\'a}{\v s} and P J{\'a}kl and M. {\v S}er{\'y} and J Je{\v z}ek and M. Li{\v s}ka}
}
