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BibTeX entries:
@ARTICLE{López-Ros:24:Real-space,
	 author = {López-Roso Redondo, J.R. AND Reticcioli, M. AND Gabriel, V. AND Wrana, D. AND Ellinger, F. AND Riva, M. AND Franceschi, G. AND Rheinfrank, E. AND Sokolović, I. AND Jakub, Z. AND Kraushofer, F. AND Alexander, A. AND Belas, E. AND Patera, L.L. AND Repp, J. AND Schmid, M. AND Diebold, U. AND Parkinson, G.S. AND Franchini, C. AND Kocan, P. AND Setvin, M.},
	 title = {Real-space investigation of polarons in hematite Fe2O3},
	 journal = {Sci. Adv.},
	 fulljournal = {Science Advances},
	 volume = {10},
	 number = {44},
	 pages = {eadp7833},
	 eid = {eadp7833},
	 year = {2024},
	 issn = {2375-2548},
	 doi = {10.1126/sciadv.adp7833},
	 KFPPid = {2589},
}

@ARTICLE{Franceschi:23:Resolving,
	 author = {Franceschi, G. AND Kocán, P. AND Conti, A. AND Brandstetter, S. AND Balajka, J. AND Sokolović, I. AND Valtiner, M. AND Mittendorfer, F. AND Schmid, M. AND Setvín, M. AND Diebold, U.},
	 title = {Resolving the intrinsic short-range ordering of K+ ions on cleaved muscovite mica},
	 journal = {Nat. Commun.},
	 fulljournal = {Nature Communications},
	 volume = {14},
	 number = {1},
	 pages = {208},
	 eid = {208},
	 year = {2023},
	 issn = {2041-1723},
	 doi = {10.1038/s41467-023-35872-y},
	 KFPPid = {2398},
}

@ARTICLE{Kučera:22:Analysis,
	 author = {Kučera, M. AND Kocán, P. AND Sobotík, P. AND Ošťádal, I.},
	 title = {Analysis of Al adatoms random hopping on Si(100)-c(4 × 2) surface observed by STM at low temperature: Determination of the hopping barriers},
	 journal = {Surf. Sci.},
	 fulljournal = {SURFACE SCIENCE},
	 volume = {720},
	 number = {},
	 pages = {122040},
	 eid = {122040},
	 year = {2022},
	 issn = {0039-6028},
	 doi = {10.1016/j.susc.2022.122040},
	 KFPPid = {2297},
}

@ARTICLE{Gabriel:22:Growth-rate,
	 author = {Gabriel, V. AND Kocán, P. AND Holý, V.},
	 title = {Growth-rate model of epitaxial layer-by-layer growth by pulsed-laser deposition},
	 journal = {Phys. Rev. E},
	 fulljournal = {PHYSICAL REVIEW E},
	 volume = {106},
	 number = {3},
	 pages = {035302},
	 eid = {035302},
	 year = {2022},
	 issn = {1063-651X},
	 doi = {10.1103/PhysRevE.106.035302},
	 KFPPid = {2341},
}

@ARTICLE{Gabriel:22:Effect,
	 author = {Gabriel, V. AND Kocán, P. AND Bauer, S. AND Nergis, B. AND Rodrigues, A. AND Horák, L. AND Jin, X. AND Schneider, R. AND Baumbach, T. AND Holý, V.},
	 title = {Effect of pulse laser frequency on PLD growth of LuFeO3 explained by kinetic simulations of in-situ diffracted intensities},
	 journal = {Sci. Rep.},
	 fulljournal = {Scientific Reports},
	 volume = {12},
	 number = {1},
	 pages = {5647},
	 eid = {5647},
	 year = {2022},
	 issn = {2045-2322},
	 doi = {10.1038/s41598-022-09414-3},
	 KFPPid = {2314},
}

@ARTICLE{Kocán:20:Stability,
	 author = {Kocán, P. AND Matvija, P. AND Sobotík, P. AND Ošt’ádal, I. AND Pieczyrak, B. AND Jurczyszyn, L.},
	 title = {Stability of Partially Fluorinated Phthalocyanine Monolayers: Influence of Hydrogen Bonding Revisited},
	 journal = {J. Phys. Chem. C},
	 fulljournal = {The Journal of Physical Chemistry C},
	 volume = {124},
	 number = {3},
	 pages = {1973--1979},
	 year = {2020},
	 issn = {1932-7447},
	 doi = {10.1021/acs.jpcc.9b09723},
	 KFPPid = {2049},
}

@ARTICLE{Gabriel:20:Effective,
	 author = {Gabriel, V. AND Kocán, P. AND Holý, V.},
	 title = {Effective algorithm for simulations of layer-by-layer growth during pulsed-laser deposition},
	 journal = {Phys. Rev. E},
	 fulljournal = {PHYSICAL REVIEW E},
	 volume = {102},
	 number = {6},
	 pages = {063305},
	 eid = {063305},
	 year = {2020},
	 issn = {1063-651X},
	 doi = {10.1103/PhysRevE.102.063305},
	 KFPPid = {2154},
}

@ARTICLE{Kocán:19:Self-ordering,
	 author = {Kocán, P. AND Pieczyrak, B. AND Jurczyszyn, L. AND Yoshimoto, Y. AND Yagyu, K. AND Tochihara, H. AND Suzuki, T.},
	 title = {Self-ordering of chemisorbed PTCDA molecules on Ge(001) driven by repulsive forces},
	 journal = {Phys. Chem. Chem. Phys.},
	 fulljournal = {Physical Chemistry Chemical Physics},
	 volume = {21},
	 number = {18},
	 pages = {9504--9511},
	 year = {2019},
	 issn = {1463-9076},
	 doi = {10.1039/C9CP01335K},
	 KFPPid = {1976},
}

@ARTICLE{Rozbořil:19:Self-assembly,
	 author = {Rozbořil, F. AND Ošťádal, I. AND Sobotík, P. AND Kocán, P.},
	 title = {Self-assembly of a two-dimensional molecular layer in a nonhomogeneous electric field: Kinetic Monte Carlo simulations},
	 journal = {Phys. Rev. E},
	 fulljournal = {PHYSICAL REVIEW E},
	 volume = {99},
	 number = {3},
	 pages = {032110},
	 eid = {032110},
	 year = {2019},
	 issn = {1063-651X},
	 doi = {10.1103/PhysRevE.99.032110},
	 KFPPid = {1944},
}

@ARTICLE{Zimmermann:19:Role,
	 author = {Zimmermann, P. AND Majer, K. AND Kocán, P. AND Ošťádal, I. AND Sobotík, P.},
	 title = {Role of Dangling Bond State Occupancy in Adsorption of Copper Phthalocyanine on Si(111)-Sn-√3 × √3},
	 journal = {J. Phys. Chem. C},
	 fulljournal = {The Journal of Physical Chemistry C},
	 volume = {123},
	 number = {26},
	 pages = {16232--16238},
	 year = {2019},
	 issn = {1932-7447},
	 doi = {10.1021/acs.jpcc.9b03624},
	 KFPPid = {1985},
}

@ARTICLE{Pieczyrak:19:Local,
	 author = {Pieczyrak, B. AND Jurczyszyn, L. AND Sobotík, P. AND Ošťádal, I. AND Kocán, P.},
	 title = {Local electronic structure of doping defects on Tl/Si(111)1x1},
	 journal = {Sci. Rep.},
	 fulljournal = {Scientific Reports},
	 volume = {9},
	 number = {Jan},
	 pages = {779},
	 eid = {779},
	 year = {2019},
	 issn = {2045-2322},
	 doi = {10.1038/s41598-018-37361-5},
	 KFPPid = {1935},
}

@ARTICLE{Sobotík:18:Anisotropic,
	 author = {Sobotík, P. AND Kocán, P. AND Ošťádal, I.},
	 title = {Anisotropic alloying: Formation of atomic scale trellis on the Si(100)-(2 × 1) surface},
	 journal = {Surf. Sci.},
	 fulljournal = {Surface Science},
	 volume = {677},
	 number = {},
	 pages = {8--11},
	 year = {2018},
	 issn = {0039-6028},
	 doi = {10.1016/j.susc.2018.05.010},
	 KFPPid = {1851},
}

@ARTICLE{Kocán:17:Adsorption,
	 author = {Kocán, P. AND Yoshimoto, Y. AND Yagyu, K. AND Tochihara, H. AND Suzuki, T.},
	 title = {Adsorption of PTCDA on Ge(001)},
	 journal = {J. Phys. Chem. C},
	 fulljournal = {JOURNAL OF PHYSICAL CHEMISTRY C},
	 volume = {121},
	 number = {6},
	 pages = {3320--3326},
	 year = {2017},
	 issn = {1932-7447},
	 doi = {10.1021/acs.jpcc.6b09793},
	 KFPPid = {1784},
}

@ARTICLE{Kučera:17:Analysis,
	 author = {Kučera, M. AND Kocán, P. AND Sobotík, P. AND Majer, K. AND Ošťádal, I.},
	 title = {Analysis of the Sn chain length fluctuations on Si(100)2x1: An extraction of microscopic parameters},
	 journal = {Phys. Rev. B},
	 fulljournal = {PHYSICAL REVIEW B},
	 volume = {96},
	 number = {4},
	 pages = {045430},
	 eid = {045430},
	 year = {2017},
	 issn = {1098-0121},
	 doi = {10.1103/PhysRevB.96.045430},
	 KFPPid = {1736},
}

@ARTICLE{Matvija:17:Pair,
	 author = {Matvija, P. AND Rozbořil, F. AND Sobotík, P. AND Ošťádal, I. AND Kocán, P.},
	 title = {Pair Correlation Function of a 2D Molecular Gas Directly Visualized by Scanning Tunneling Microscopy},
	 journal = {J. Phys. Chem. Lett.},
	 fulljournal = {Journal of Physical Chemistry Letters},
	 volume = {8},
	 number = {17},
	 pages = {4268--4272},
	 year = {2017},
	 issn = {1948-7185},
	 doi = {10.1021/acs.jpclett.7b01965},
	 KFPPid = {1738},
}

@ARTICLE{Matvija:17:Electric-field-controlled,
	 author = {Matvija, P. AND Rozbořil, F. AND Sobotík, P. AND Ošťádal, I. AND Pieczyrak, B. AND Jurczyszyn, L. AND Kocán, P.},
	 title = {Electric-field-controlled phase transition in a 2D molecular layer},
	 journal = {Sci. Rep.},
	 fulljournal = {Scientific Reports},
	 volume = {7},
	 number = {4 Aug},
	 pages = {7357},
	 eid = {7357},
	 year = {2017},
	 issn = {2045-2322},
	 doi = {10.1038/s41598-017-07277-7},
	 KFPPid = {1737},
}

@ARTICLE{Zimmermann:16:Adsorption,
	 author = {Zimmermann, P. AND Sobotík, P. AND Kocán, P. AND Ošt’ádal, I. AND Vorokhta, M. AND Acres, R.G. AND Matolín, V.},
	 title = {Adsorption of ethylene on Sn and In terminated Si(001) surface studied by photoelectron spectroscopy and scanning tunneling microscopy},
	 journal = {J. Chem. Phys.},
	 fulljournal = {JOURNAL OF CHEMICAL PHYSICS},
	 volume = {145},
	 number = {9},
	 pages = {094701},
	 eid = {094701},
	 year = {2016},
	 issn = {0021-9606},
	 doi = {10.1063/1.4961737},
	 KFPPid = {1638},
}

@ARTICLE{Krejčí:16:Chemisorption,
	 author = {Krejčí, O. AND Matvija, P. AND Zimmermann, P. AND Sobotík, P. AND Ošt’ádal, I. AND Kocán, P.},
	 title = {Chemisorption of Acetophenone on Si(111)-7 × 7. Polar Aromatic Molecule on Electronically Complex Surface},
	 journal = {J. Phys. Chem. C},
	 fulljournal = {JOURNAL OF PHYSICAL CHEMISTRY C},
	 volume = {120},
	 number = {17},
	 pages = {9200--9206},
	 year = {2016},
	 issn = {1932-7447},
	 doi = {10.1021/acs.jpcc.6b00486},
	 KFPPid = {1607},
}

@ARTICLE{Kocan:15:Anomalous,
	 author = {Kocan, P. AND Krejci, O. AND Tochihara, H.},
	 title = {Anomalous structural evolution and √3×√3 reconstruction of a clean Si(111) surface observed after thermal desorption of thallium},
	 journal = {J. Vac. Sci. Technol. A},
	 fulljournal = {JOURNAL OF VACUUM SCIENCE & TECHNOLOGY A},
	 volume = {33},
	 number = {2},
	 pages = {021408},
	 eid = {021408},
	 year = {2015},
	 issn = {0734-2101},
	 doi = {10.1116/1.4913199},
	 KFPPid = {1487},
}

@ARTICLE{Matvija:15:Diverse,
	 author = {Matvija, P. AND Sobotik, P. AND Ostadal, I. AND Kocan, P.},
	 title = {Diverse growth of Mn, In and Sn islands on thallium-passivated Si(1 1 1) surface},
	 journal = {Appl. Surf. Sci.},
	 fulljournal = {APPLIED SURFACE SCIENCE},
	 volume = {331},
	 number = {Mar},
	 pages = {339--345},
	 year = {2015},
	 issn = {0169-4332},
	 doi = {10.1016/j.apsusc.2015.01.067},
	 KFPPid = {1489},
}

@ARTICLE{Kocan:13:Desorption-induced,
	 author = {Kocan, P. AND Sobotik, P. AND Ostadal, I.},
	 title = {Desorption-induced structural changes of metal/Si(111) surfaces: Kinetic Monte Carlo simulations},
	 journal = {Phys. Rev. E},
	 fulljournal = {PHYSICAL REVIEW E},
	 volume = {88},
	 number = {2},
	 pages = {022403},
	 eid = {022403},
	 year = {2013},
	 issn = {1539-3755},
	 doi = {10.1103/PhysRevE.88.022403},
	 KFPPid = {1342},
}

@ARTICLE{Sobotik:13:Emergence,
	 author = {Sobotik, P. AND Setvin, M. AND Zimmermann, P. AND Kocan, P. AND Ostadal, I. AND Mutombo, P. AND Ondracek, M. AND Jelinek, P.},
	 title = {Emergence of state at Fermi level due to the formation of In-Sn heterodimers on Si(100)-2×1},
	 journal = {Phys. Rev. B},
	 fulljournal = {PHYSICAL REVIEW B},
	 volume = {88},
	 number = {20},
	 pages = {205406},
	 eid = {205406},
	 year = {2013},
	 issn = {1098-0121},
	 doi = {10.1103/PhysRevB.88.205406},
	 KFPPid = {1352},
}

@ARTICLE{Kocan:12:An,
	 author = {Kocan, P. AND Sobotik, P. AND Matvija, P. AND Setvin, M. AND Ostadal, I.},
	 title = {An STM study of desorption-induced thallium structures on the Si(111) surface},
	 journal = {Surf. Sci.},
	 fulljournal = {SURFACE SCIENCE},
	 volume = {606},
	 number = {13-14},
	 pages = {991--995},
	 year = {2012},
	 issn = {0039-6028},
	 doi = {10.1016/j.susc.2011.12.016},
	 KFPPid = {1240},
}

@ARTICLE{Setvin:12:Competition,
	 author = {Setvin, M. AND Javorsky, J. AND Majzik, Z. AND Sobotik, P. AND Kocan, P. AND Ostadal, I. .},
	 title = {Competition between thermally activated and tip-induced hopping of indium atoms on Si(100)},
	 journal = {Phys. Rev. B},
	 fulljournal = {PHYSICAL REVIEW B},
	 volume = {85},
	 number = {8},
	 pages = {081403(R)},
	 eid = {081403(R)},
	 year = {2012},
	 issn = {1098-0121},
	 doi = {10.1103/PhysRevB.85.081403},
	 KFPPid = {1230},
}

@ARTICLE{Setvin:12:Ultrasharp,
	 author = {Setvin, M. AND Javorsky, J. AND Turcinkova, D. AND Matolinova, I. AND Sobotik, P. AND Kocan, P. AND Ostadal, I.},
	 title = {Ultrasharp tungsten tips—characterization and nondestructive cleaning},
	 journal = {Ultramicroscopy},
	 fulljournal = {ULTRAMICROSCOPY},
	 volume = {113},
	 number = {2},
	 pages = {152--157},
	 year = {2012},
	 issn = {0304-3991},
	 doi = {10.1016/j.ultramic.2011.10.005},
	 KFPPid = {1198},
}

@ARTICLE{Kocan:11:Metallic-like,
	 author = {Kocan, P. AND Sobotik, P. AND Ostadal, I.},
	 title = {Metallic-like thallium overlayer on a Si(111) surface},
	 journal = {Phys. Rev. B},
	 fulljournal = {PHYSICAL REVIEW B},
	 volume = {84},
	 number = {23},
	 pages = {233304},
	 eid = {233304},
	 year = {2011},
	 issn = {1098-0121},
	 doi = {10.1103/PhysRevB.84.233304},
	 KFPPid = {1199},
}

@ARTICLE{Sobotik:10:Local,
	 author = {Sobotik, P. AND Ostadal, I. AND Kocan, P.},
	 title = {Local electronic structure of the Si(111)-(7 × 7) surface interacting with Ag atoms},
	 journal = {Surf. Sci.},
	 fulljournal = {SURFACE SCIENCE},
	 volume = {604},
	 number = {19-20},
	 pages = {1778--1783},
	 year = {2010},
	 issn = {0039-6028},
	 doi = {10.1016/j.susc.2010.07.004},
	 KFPPid = {1021},
}

@ARTICLE{Kocan:09:Si,
	 author = {Kocan, P. AND Tochihara, H.},
	 title = {Si islands with 1 × 1 termination formed by desorption of Tl from Si(1 1 1) surface},
	 journal = {Appl. Surf. Sci.},
	 fulljournal = {APPLIED SURFACE SCIENCE},
	 volume = {256},
	 number = {4},
	 pages = {1168--1170},
	 year = {2009},
	 issn = {0169-4332},
	 doi = {10.1016/j.apsusc.2009.05.078},
	 KFPPid = {958},
}

@ARTICLE{Kocan:09:Modeling,
	 author = {Kocan, P. AND Sobotik, P. AND Ostadal, I. AND Setvin, M. AND Haviar, S.},
	 title = {Modeling growth of one-dimensional islands: Influence of reactive defects},
	 journal = {Phys. Rev. E},
	 fulljournal = {PHYSICAL REVIEW E},
	 volume = {80},
	 number = {6},
	 pages = {061603},
	 eid = {061603},
	 year = {2009},
	 issn = {1063-651X},
	 doi = {10.1103/PhysRevE.80.061603},
	 KFPPid = {959},
}

@ARTICLE{Higashi:09:Reactive,
	 author = {Higashi, S. AND Kocan, P. AND Tochihara, H.},
	 title = {Reactive epitaxial growth of MnSi ultrathin films on Si(111) by Mn deposition},
	 journal = {Phys. Rev. B},
	 fulljournal = {PHYSICAL REVIEW B},
	 volume = {79},
	 number = {20},
	 pages = {205312},
	 eid = {205312},
	 year = {2009},
	 issn = {1098-0121},
	 doi = {10.1103/PhysRevB.79.205312},
	 KFPPid = {951},
}

@ARTICLE{Kocan:08:Magic,
	 author = {Kocan, P. AND Visikovskiy, A.V. AND Ohira, Y. AND Yoshimura, M. AND Ueda, K. AND Tochihara, H.},
	 title = {Magic clusters and (2×1) local structure formed in a half-unit cell of the Si(1 1 1)-(7×7) surface by Tl adsorption},
	 journal = {Appl. Surf. Sci.},
	 fulljournal = {APPLIED SURFACE SCIENCE},
	 volume = {254},
	 number = {23},
	 pages = {7647--7650},
	 year = {2008},
	 issn = {0169-4332},
	 doi = {10.1016/j.apsusc.2008.01.141},
	 KFPPid = {842},
}

@ARTICLE{Kocan:08:Defects,
	 author = {Kocan, P. AND Jurczyszyn, L. AND Sobotik, P. AND Ostadal, I.},
	 title = {Defects on the Si(100)-2×1 surface: Anchoring sites of the surface polymerization reaction of In atoms},
	 journal = {Phys. Rev. B},
	 fulljournal = {PHYSICAL REVIEW B},
	 volume = {77},
	 number = {11},
	 pages = {113301},
	 eid = {113301},
	 year = {2008},
	 issn = {1098-0121},
	 doi = {10.1103/PhysRevB.77.113301},
	 KFPPid = {812},
}

@ARTICLE{Higashi:08:Epitaxially,
	 author = {Higashi, S. AND Ikedo, Y. AND Kocan, P. AND Tochihara, H.},
	 title = {Epitaxially grown flat MnSi ultrathin film on Si(111)},
	 journal = {Appl. Phys. Lett.},
	 fulljournal = {APPLIED PHYSICS LETTERS},
	 volume = {93},
	 number = {1},
	 pages = {013104},
	 eid = {013104},
	 year = {2008},
	 issn = {0003-6951},
	 doi = {10.1063/1.2952495},
	 KFPPid = {843},
}

@ARTICLE{Kocan:07:Stability,
	 author = {Kocan, P. AND Sobotik, P. AND Ostadal, I. AND Javorsky, J. AND Setvin, M.},
	 title = {Stability of In rows on Si(100) during STM observation},
	 journal = {Surf. Sci.},
	 fulljournal = {SURFACE SCIENCE},
	 volume = {601},
	 number = {18},
	 pages = {4506--4509},
	 year = {2007},
	 issn = {0039-6028},
	 doi = {10.1016/j.susc.2007.04.132},
	 KFPPid = {759},
}

@ARTICLE{Kocan:06:Growth,
	 author = {Kocan, P. AND Ostadal, I. AND Sobotik, P.},
	 title = {Growth of silver structures on silicon surfaces observed in vivo by scanning tunneling microscopy},
	 journal = {Surf. Sci.},
	 fulljournal = {SURFACE SCIENCE},
	 volume = {600},
	 number = {18},
	 pages = {3928--3931},
	 year = {2006},
	 issn = {0039-6028},
	 doi = {10.1016/j.susc.2006.01.103},
	 KFPPid = {618},
}

@ARTICLE{Kocan:06:Role,
	 author = {Kocan, P. AND Sobotik, P. AND Ostadal, I.},
	 title = {Role of surface defects in room-temperature growth of metals on Si(100)2 x 1},
	 journal = {Czech. J. Phys.},
	 fulljournal = {CZECHOSLOVAK JOURNAL OF PHYSICS},
	 volume = {56},
	 number = {1},
	 pages = {27--32},
	 year = {2006},
	 issn = {0011-4626},
	 doi = {10.1007/s10582-006-0062-1},
	 KFPPid = {674},
}

@ARTICLE{Kocan:06:Comment,
	 author = {Kocan, P. AND Sobotik, P. AND Ostadal, I.},
	 title = {Comment on "Monotonically decreasing size distributions for one-dimensional Ga rows on Si(100)"},
	 journal = {Phys. Rev. B},
	 fulljournal = {PHYSICAL REVIEW B},
	 volume = {74},
	 number = {3},
	 pages = {037401},
	 eid = {037401},
	 year = {2006},
	 issn = {1098-0121},
	 doi = {10.1103/PhysRevB.74.037401},
	 KFPPid = {648},
}

@ARTICLE{Ostadal:06:Early,
	 author = {Ostadal, I. AND Kocan, P. AND Sobotik, P. AND Pudl, J.},
	 title = {Early stages of submonolayer growth of Ag on Si(111) 7 x 7 observed by scanning tunneling microscopy in vivo},
	 journal = {Jpn. J. Appl. Phys.},
	 fulljournal = {JAPANESE JOURNAL OF APPLIED PHYSICS PART 1-REGULAR PAPERS BRIEF COMMUNICATIONS & REVIEW PAPERS},
	 volume = {45},
	 number = {3B},
	 pages = {2170--2174},
	 year = {2006},
	 issn = {0021-4922},
	 doi = {10.1143/JJAP.45.2170},
	 KFPPid = {672},
}

@ARTICLE{Ostadal:05:Direct,
	 author = {Ostadal, I. AND Kocan, P. AND Sobotik, P. AND Pudl, J.},
	 title = {Direct observation of long-range assisted formation of Ag clusters on Si(111)7x7},
	 journal = {Phys. Rev. Lett.},
	 fulljournal = {PHYSICAL REVIEW LETTERS},
	 volume = {95},
	 number = {14},
	 pages = {146101},
	 eid = {146101},
	 year = {2005},
	 issn = {0031-9007},
	 doi = {10.1103/PhysRevLett.95.146101},
	 KFPPid = {2},
}

@ARTICLE{Kocan:04:Continuous,
	 author = {Kocan, P. AND Sobotik, P. AND Ostadal, I. AND Kotrla, M.},
	 title = {Continuous and correlated nucleation during nonstandard island growth at Ag/Si(111)-7x7 heteroepitaxy},
	 journal = {Phys. Rev. B},
	 fulljournal = {PHYSICAL REVIEW B},
	 volume = {69},
	 number = {16},
	 pages = {165409},
	 eid = {165409},
	 year = {2004},
	 issn = {1098-0121},
	 doi = {10.1103/PhysRevB.69.165409},
	 KFPPid = {86},
}

@ARTICLE{Kocan:04:Structural,
	 author = {Kocan, P. AND Ohtake, A. AND Koguchi, N.},
	 title = {Structural features of Ga-rich GaAs(001) surfaces: Scanning tunneling microscopy study},
	 journal = {Phys. Rev. B},
	 fulljournal = {PHYSICAL REVIEW B},
	 volume = {70},
	 number = {20},
	 pages = {201303},
	 eid = {201303},
	 year = {2004},
	 issn = {1098-0121},
	 doi = {10.1103/PhysRevB.70.201303},
	 KFPPid = {43},
}

@ARTICLE{Kocan:04:Self-organized,
	 author = {Kocan, P. AND Sobotik, P. AND Ostadal, I. AND Kotrla, M.},
	 title = {Self-organized growth of Ag islands on Si(111)-(7x7)-optimization of an STM experiment by means of KMC simulations},
	 journal = {Surf. Sci.},
	 fulljournal = {SURFACE SCIENCE},
	 volume = {566},
	 number = {},
	 pages = {216--220},
	 year = {2004},
	 issn = {0039-6028},
	 doi = {10.1016/j.susc.2004.06.133},
	 KFPPid = {64},
}

@ARTICLE{Ohtake:04:Ga-rich,
	 author = {Ohtake, A. AND Kocan, P. AND Seino, K. AND Schmidt, W.G. AND Koguchi, N.},
	 title = {Ga-rich limit of surface reconstructions on GaAs(001): Atomic structure of the (4 x 6) phase},
	 journal = {Phys. Rev. Lett.},
	 fulljournal = {PHYSICAL REVIEW LETTERS},
	 volume = {93},
	 number = {26},
	 pages = {266101},
	 eid = {266101},
	 year = {2004},
	 issn = {0031-9007},
	 doi = {10.1103/PhysRevLett.93.266101},
	 KFPPid = {39},
}

@ARTICLE{Ohtake:04:Kinetics,
	 author = {Ohtake, A. AND Kocan, P. AND Nakamura, J. AND Natori, A. AND Koguchi, N.},
	 title = {Kinetics in surface reconstructions on GaAs(001)},
	 journal = {Phys. Rev. Lett.},
	 fulljournal = {PHYSICAL REVIEW LETTERS},
	 volume = {92},
	 number = {23},
	 pages = {236105},
	 eid = {236105},
	 year = {2004},
	 issn = {0031-9007},
	 doi = {10.1103/PhysRevLett.92.236105},
	 KFPPid = {85},
}

@ARTICLE{Sobotik:04:STM,
	 author = {Sobotik, P. AND Ostadal, I. AND Kocan, P.},
	 title = {STM observation of Ag adatom interactions on the Si(111)-(7 x 7) surface},
	 journal = {Vacuum},
	 fulljournal = {VACUUM},
	 volume = {76},
	 number = {4},
	 pages = {465--469},
	 year = {2004},
	 issn = {0042-207X},
	 doi = {10.1016/j.vacuum.2004.05.008},
	 KFPPid = {50},
}

@ARTICLE{Sobotik:03:Direct,
	 author = {Sobotik, P. AND Kocan, P. AND Ostadal, I.},
	 title = {Direct observation of Ag intercell hopping on the Si(111)-(7 x 7) surface},
	 journal = {Surf. Sci.},
	 fulljournal = {SURFACE SCIENCE},
	 volume = {537},
	 number = {1-3},
	 pages = {L442--L446},
	 year = {2003},
	 issn = {0039-6028},
	 doi = {10.1016/S0039-6028(03)00608-3},
	 KFPPid = {114},
}

@ARTICLE{Ostadal:03:Ag/Si(111)-(7,
	 author = {Ostadal, I. AND Kocan, P. AND Myslivecek, J. AND Sobotik, P.},
	 title = {Ag/Si(111)-(7 x 7) heteroepitaxy - STM experiment and KMC simulations},
	 journal = {Czech. J. Phys.},
	 fulljournal = {CZECHOSLOVAK JOURNAL OF PHYSICS},
	 volume = {53},
	 number = {1},
	 pages = {41--48},
	 year = {2003},
	 issn = {0011-4626},
	 doi = {10.1023/A:1022493503321},
	 KFPPid = {137},
}

@ARTICLE{Sobotik:03:Reconstruction-determined,
	 author = {Sobotik, P. AND Ostadal, I. AND Kocan, P. AND Myslivecek, J. AND Jarolimek, T.},
	 title = {Reconstruction-determined diffusion of Ag adatoms on the Si(111)-(7x7) surface},
	 journal = {Czech. J. Phys.},
	 fulljournal = {CZECHOSLOVAK JOURNAL OF PHYSICS},
	 volume = {53},
	 number = {1},
	 pages = {69--74},
	 year = {2003},
	 issn = {0011-4626},
	 doi = {10.1023/A:1022359705138},
	 KFPPid = {138},
}

@ARTICLE{Sobotik:02:Reconstruction,
	 author = {Sobotik, P. AND Ostadal, I. AND Kocan, P.},
	 title = {Reconstruction determined submonolayer growth of Ag on Si(111)-(7x7) surface},
	 journal = {Surf. Sci.},
	 fulljournal = {SURFACE SCIENCE},
	 volume = {507},
	 number = {},
	 pages = {389--393},
	 year = {2002},
	 issn = {0039-6028},
	 doi = {10.1016/S0039-6028(02)01275-X},
	 KFPPid = {176},
}


Bibitems:

\bibitem[{López-Ros et~al.(2024)}]{López-Ros:24:Real-space}
López-Roso Redondo, J.R., Reticcioli, M., Gabriel, V., Wrana, D., Ellinger, F., Riva, M., Franceschi, G., Rheinfrank, E., Sokolović, I., Jakub, Z., Kraushofer, F., Alexander, A., Belas, E., Patera, L.L., Repp, J., Schmid, M., Diebold, U., Parkinson, G.S., Franchini, C., Kocan, P., Setvin, M., Real-space investigation of polarons in hematite Fe2O3. {\it Sci. Adv.} {\bf 10}(44): eadp7833, 2024.

\bibitem[{Franceschi et~al.(2023)}]{Franceschi:23:Resolving}
Franceschi, G., Kocán, P., Conti, A., Brandstetter, S., Balajka, J., Sokolović, I., Valtiner, M., Mittendorfer, F., Schmid, M., Setvín, M., Diebold, U., Resolving the intrinsic short-range ordering of K+ ions on cleaved muscovite mica. {\it Nat. Commun.} {\bf 14}(1): 208, 2023.

\bibitem[{Kučera et~al.(2022)}]{Kučera:22:Analysis}
Kučera, M., Kocán, P., Sobotík, P., Ošťádal, I., Analysis of Al adatoms random hopping on Si(100)-c(4 × 2) surface observed by STM at low temperature: Determination of the hopping barriers. {\it Surf. Sci.} {\bf 720}: 122040, 2022.

\bibitem[{Gabriel et~al.(2022)}]{Gabriel:22:Growth-rate}
Gabriel, V., Kocán, P., Holý, V., Growth-rate model of epitaxial layer-by-layer growth by pulsed-laser deposition. {\it Phys. Rev. E.} {\bf 106}(3): 035302, 2022.

\bibitem[{Gabriel et~al.(2022)}]{Gabriel:22:Effect}
Gabriel, V., Kocán, P., Bauer, S., Nergis, B., Rodrigues, A., Horák, L., Jin, X., Schneider, R., Baumbach, T., Holý, V., Effect of pulse laser frequency on PLD growth of LuFeO3 explained by kinetic simulations of in-situ diffracted intensities. {\it Sci. Rep.} {\bf 12}(1): 5647, 2022.

\bibitem[{Kocán et~al.(2020)}]{Kocán:20:Stability}
Kocán, P., Matvija, P., Sobotík, P., Ošt’ádal, I., Pieczyrak, B., Jurczyszyn, L., Stability of Partially Fluorinated Phthalocyanine Monolayers: Influence of Hydrogen Bonding Revisited. {\it J. Phys. Chem. C.} {\bf 124}(3): 1973--1979, 2020.

\bibitem[{Gabriel et~al.(2020)}]{Gabriel:20:Effective}
Gabriel, V., Kocán, P., Holý, V., Effective algorithm for simulations of layer-by-layer growth during pulsed-laser deposition. {\it Phys. Rev. E.} {\bf 102}(6): 063305, 2020.

\bibitem[{Kocán et~al.(2019)}]{Kocán:19:Self-ordering}
Kocán, P., Pieczyrak, B., Jurczyszyn, L., Yoshimoto, Y., Yagyu, K., Tochihara, H., Suzuki, T., Self-ordering of chemisorbed PTCDA molecules on Ge(001) driven by repulsive forces. {\it Phys. Chem. Chem. Phys.} {\bf 21}(18): 9504--9511, 2019.

\bibitem[{Rozbořil et~al.(2019)}]{Rozbořil:19:Self-assembly}
Rozbořil, F., Ošťádal, I., Sobotík, P., Kocán, P., Self-assembly of a two-dimensional molecular layer in a nonhomogeneous electric field: Kinetic Monte Carlo simulations. {\it Phys. Rev. E.} {\bf 99}(3): 032110, 2019.

\bibitem[{Zimmermann et~al.(2019)}]{Zimmermann:19:Role}
Zimmermann, P., Majer, K., Kocán, P., Ošťádal, I., Sobotík, P., Role of Dangling Bond State Occupancy in Adsorption of Copper Phthalocyanine on Si(111)-Sn-√3 × √3. {\it J. Phys. Chem. C.} {\bf 123}(26): 16232--16238, 2019.

\bibitem[{Pieczyrak et~al.(2019)}]{Pieczyrak:19:Local}
Pieczyrak, B., Jurczyszyn, L., Sobotík, P., Ošťádal, I., Kocán, P., Local electronic structure of doping defects on Tl/Si(111)1x1. {\it Sci. Rep.} {\bf 9}(Jan): 779, 2019.

\bibitem[{Sobotík et~al.(2018)}]{Sobotík:18:Anisotropic}
Sobotík, P., Kocán, P., Ošťádal, I., Anisotropic alloying: Formation of atomic scale trellis on the Si(100)-(2 × 1) surface. {\it Surf. Sci.} {\bf 677}: 8--11, 2018.

\bibitem[{Kocán et~al.(2017)}]{Kocán:17:Adsorption}
Kocán, P., Yoshimoto, Y., Yagyu, K., Tochihara, H., Suzuki, T., Adsorption of PTCDA on Ge(001). {\it J. Phys. Chem. C.} {\bf 121}(6): 3320--3326, 2017.

\bibitem[{Kučera et~al.(2017)}]{Kučera:17:Analysis}
Kučera, M., Kocán, P., Sobotík, P., Majer, K., Ošťádal, I., Analysis of the Sn chain length fluctuations on Si(100)2x1: An extraction of microscopic parameters. {\it Phys. Rev. B.} {\bf 96}(4): 045430, 2017.

\bibitem[{Matvija et~al.(2017)}]{Matvija:17:Pair}
Matvija, P., Rozbořil, F., Sobotík, P., Ošťádal, I., Kocán, P., Pair Correlation Function of a 2D Molecular Gas Directly Visualized by Scanning Tunneling Microscopy. {\it J. Phys. Chem. Lett.} {\bf 8}(17): 4268--4272, 2017.

\bibitem[{Matvija et~al.(2017)}]{Matvija:17:Electric-field-controlled}
Matvija, P., Rozbořil, F., Sobotík, P., Ošťádal, I., Pieczyrak, B., Jurczyszyn, L., Kocán, P., Electric-field-controlled phase transition in a 2D molecular layer. {\it Sci. Rep.} {\bf 7}(4 Aug): 7357, 2017.

\bibitem[{Zimmermann et~al.(2016)}]{Zimmermann:16:Adsorption}
Zimmermann, P., Sobotík, P., Kocán, P., Ošt’ádal, I., Vorokhta, M., Acres, R.G., Matolín, V., Adsorption of ethylene on Sn and In terminated Si(001) surface studied by photoelectron spectroscopy and scanning tunneling microscopy. {\it J. Chem. Phys.} {\bf 145}(9): 094701, 2016.

\bibitem[{Krejčí et~al.(2016)}]{Krejčí:16:Chemisorption}
Krejčí, O., Matvija, P., Zimmermann, P., Sobotík, P., Ošt’ádal, I., Kocán, P., Chemisorption of Acetophenone on Si(111)-7 × 7. Polar Aromatic Molecule on Electronically Complex Surface. {\it J. Phys. Chem. C.} {\bf 120}(17): 9200--9206, 2016.

\bibitem[{Kocan et~al.(2015)}]{Kocan:15:Anomalous}
Kocan, P., Krejci, O., Tochihara, H., Anomalous structural evolution and √3×√3 reconstruction of a clean Si(111) surface observed after thermal desorption of thallium. {\it J. Vac. Sci. Technol. A.} {\bf 33}(2): 021408, 2015.

\bibitem[{Matvija et~al.(2015)}]{Matvija:15:Diverse}
Matvija, P., Sobotik, P., Ostadal, I., Kocan, P., Diverse growth of Mn, In and Sn islands on thallium-passivated Si(1 1 1) surface. {\it Appl. Surf. Sci.} {\bf 331}(Mar): 339--345, 2015.

\bibitem[{Kocan et~al.(2013)}]{Kocan:13:Desorption-induced}
Kocan, P., Sobotik, P., Ostadal, I., Desorption-induced structural changes of metal/Si(111) surfaces: Kinetic Monte Carlo simulations. {\it Phys. Rev. E.} {\bf 88}(2): 022403, 2013.

\bibitem[{Sobotik et~al.(2013)}]{Sobotik:13:Emergence}
Sobotik, P., Setvin, M., Zimmermann, P., Kocan, P., Ostadal, I., Mutombo, P., Ondracek, M., Jelinek, P., Emergence of state at Fermi level due to the formation of In-Sn heterodimers on Si(100)-2×1. {\it Phys. Rev. B.} {\bf 88}(20): 205406, 2013.

\bibitem[{Kocan et~al.(2012)}]{Kocan:12:An}
Kocan, P., Sobotik, P., Matvija, P., Setvin, M., Ostadal, I., An STM study of desorption-induced thallium structures on the Si(111) surface. {\it Surf. Sci.} {\bf 606}(13-14): 991--995, 2012.

\bibitem[{Setvin et~al.(2012)}]{Setvin:12:Competition}
Setvin, M., Javorsky, J., Majzik, Z., Sobotik, P., Kocan, P., Ostadal, I. ., Competition between thermally activated and tip-induced hopping of indium atoms on Si(100). {\it Phys. Rev. B.} {\bf 85}(8): 081403(R), 2012.

\bibitem[{Setvin et~al.(2012)}]{Setvin:12:Ultrasharp}
Setvin, M., Javorsky, J., Turcinkova, D., Matolinova, I., Sobotik, P., Kocan, P., Ostadal, I., Ultrasharp tungsten tips—characterization and nondestructive cleaning. {\it Ultramicroscopy.} {\bf 113}(2): 152--157, 2012.

\bibitem[{Kocan et~al.(2011)}]{Kocan:11:Metallic-like}
Kocan, P., Sobotik, P., Ostadal, I., Metallic-like thallium overlayer on a Si(111) surface. {\it Phys. Rev. B.} {\bf 84}(23): 233304, 2011.

\bibitem[{Sobotik et~al.(2010)}]{Sobotik:10:Local}
Sobotik, P., Ostadal, I., Kocan, P., Local electronic structure of the Si(111)-(7 × 7) surface interacting with Ag atoms. {\it Surf. Sci.} {\bf 604}(19-20): 1778--1783, 2010.

\bibitem[{Kocan and Tochihara(2009)}]{Kocan:09:Si}
Kocan, P., Tochihara, H., Si islands with 1 × 1 termination formed by desorption of Tl from Si(1 1 1) surface. {\it Appl. Surf. Sci.} {\bf 256}(4): 1168--1170, 2009.

\bibitem[{Kocan et~al.(2009)}]{Kocan:09:Modeling}
Kocan, P., Sobotik, P., Ostadal, I., Setvin, M., Haviar, S., Modeling growth of one-dimensional islands: Influence of reactive defects. {\it Phys. Rev. E.} {\bf 80}(6): 061603, 2009.

\bibitem[{Higashi et~al.(2009)}]{Higashi:09:Reactive}
Higashi, S., Kocan, P., Tochihara, H., Reactive epitaxial growth of MnSi ultrathin films on Si(111) by Mn deposition. {\it Phys. Rev. B.} {\bf 79}(20): 205312, 2009.

\bibitem[{Kocan et~al.(2008)}]{Kocan:08:Magic}
Kocan, P., Visikovskiy, A.V., Ohira, Y., Yoshimura, M., Ueda, K., Tochihara, H., Magic clusters and (2×1) local structure formed in a half-unit cell of the Si(1 1 1)-(7×7) surface by Tl adsorption. {\it Appl. Surf. Sci.} {\bf 254}(23): 7647--7650, 2008.

\bibitem[{Kocan et~al.(2008)}]{Kocan:08:Defects}
Kocan, P., Jurczyszyn, L., Sobotik, P., Ostadal, I., Defects on the Si(100)-2×1 surface: Anchoring sites of the surface polymerization reaction of In atoms. {\it Phys. Rev. B.} {\bf 77}(11): 113301, 2008.

\bibitem[{Higashi et~al.(2008)}]{Higashi:08:Epitaxially}
Higashi, S., Ikedo, Y., Kocan, P., Tochihara, H., Epitaxially grown flat MnSi ultrathin film on Si(111). {\it Appl. Phys. Lett.} {\bf 93}(1): 013104, 2008.

\bibitem[{Kocan et~al.(2007)}]{Kocan:07:Stability}
Kocan, P., Sobotik, P., Ostadal, I., Javorsky, J., Setvin, M., Stability of In rows on Si(100) during STM observation. {\it Surf. Sci.} {\bf 601}(18): 4506--4509, 2007.

\bibitem[{Kocan et~al.(2006)}]{Kocan:06:Growth}
Kocan, P., Ostadal, I., Sobotik, P., Growth of silver structures on silicon surfaces observed in vivo by scanning tunneling microscopy. {\it Surf. Sci.} {\bf 600}(18): 3928--3931, 2006.

\bibitem[{Kocan et~al.(2006)}]{Kocan:06:Role}
Kocan, P., Sobotik, P., Ostadal, I., Role of surface defects in room-temperature growth of metals on Si(100)2 x 1. {\it Czech. J. Phys.} {\bf 56}(1): 27--32, 2006.

\bibitem[{Kocan et~al.(2006)}]{Kocan:06:Comment}
Kocan, P., Sobotik, P., Ostadal, I., Comment on "Monotonically decreasing size distributions for one-dimensional Ga rows on Si(100)". {\it Phys. Rev. B.} {\bf 74}(3): 037401, 2006.

\bibitem[{Ostadal et~al.(2006)}]{Ostadal:06:Early}
Ostadal, I., Kocan, P., Sobotik, P., Pudl, J., Early stages of submonolayer growth of Ag on Si(111) 7 x 7 observed by scanning tunneling microscopy in vivo. {\it Jpn. J. Appl. Phys.} {\bf 45}(3B): 2170--2174, 2006.

\bibitem[{Ostadal et~al.(2005)}]{Ostadal:05:Direct}
Ostadal, I., Kocan, P., Sobotik, P., Pudl, J., Direct observation of long-range assisted formation of Ag clusters on Si(111)7x7. {\it Phys. Rev. Lett.} {\bf 95}(14): 146101, 2005.

\bibitem[{Kocan et~al.(2004)}]{Kocan:04:Continuous}
Kocan, P., Sobotik, P., Ostadal, I., Kotrla, M., Continuous and correlated nucleation during nonstandard island growth at Ag/Si(111)-7x7 heteroepitaxy. {\it Phys. Rev. B.} {\bf 69}(16): 165409, 2004.

\bibitem[{Kocan et~al.(2004)}]{Kocan:04:Structural}
Kocan, P., Ohtake, A., Koguchi, N., Structural features of Ga-rich GaAs(001) surfaces: Scanning tunneling microscopy study. {\it Phys. Rev. B.} {\bf 70}(20): 201303, 2004.

\bibitem[{Kocan et~al.(2004)}]{Kocan:04:Self-organized}
Kocan, P., Sobotik, P., Ostadal, I., Kotrla, M., Self-organized growth of Ag islands on Si(111)-(7x7)-optimization of an STM experiment by means of KMC simulations. {\it Surf. Sci.} {\bf 566}: 216--220, 2004.

\bibitem[{Ohtake et~al.(2004)}]{Ohtake:04:Ga-rich}
Ohtake, A., Kocan, P., Seino, K., Schmidt, W.G., Koguchi, N., Ga-rich limit of surface reconstructions on GaAs(001): Atomic structure of the (4 x 6) phase. {\it Phys. Rev. Lett.} {\bf 93}(26): 266101, 2004.

\bibitem[{Ohtake et~al.(2004)}]{Ohtake:04:Kinetics}
Ohtake, A., Kocan, P., Nakamura, J., Natori, A., Koguchi, N., Kinetics in surface reconstructions on GaAs(001). {\it Phys. Rev. Lett.} {\bf 92}(23): 236105, 2004.

\bibitem[{Sobotik et~al.(2004)}]{Sobotik:04:STM}
Sobotik, P., Ostadal, I., Kocan, P., STM observation of Ag adatom interactions on the Si(111)-(7 x 7) surface. {\it Vacuum.} {\bf 76}(4): 465--469, 2004.

\bibitem[{Sobotik et~al.(2003)}]{Sobotik:03:Direct}
Sobotik, P., Kocan, P., Ostadal, I., Direct observation of Ag intercell hopping on the Si(111)-(7 x 7) surface. {\it Surf. Sci.} {\bf 537}(1-3): L442--L446, 2003.

\bibitem[{Ostadal et~al.(2003)}]{Ostadal:03:Ag/Si(111)-(7}
Ostadal, I., Kocan, P., Myslivecek, J., Sobotik, P., Ag/Si(111)-(7 x 7) heteroepitaxy - STM experiment and KMC simulations. {\it Czech. J. Phys.} {\bf 53}(1): 41--48, 2003.

\bibitem[{Sobotik et~al.(2003)}]{Sobotik:03:Reconstruction-determined}
Sobotik, P., Ostadal, I., Kocan, P., Myslivecek, J., Jarolimek, T., Reconstruction-determined diffusion of Ag adatoms on the Si(111)-(7x7) surface. {\it Czech. J. Phys.} {\bf 53}(1): 69--74, 2003.

\bibitem[{Sobotik et~al.(2002)}]{Sobotik:02:Reconstruction}
Sobotik, P., Ostadal, I., Kocan, P., Reconstruction determined submonolayer growth of Ag on Si(111)-(7x7) surface. {\it Surf. Sci.} {\bf 507}: 389--393, 2002.