Publikácie OMSP

2021 | 2020 | 2019 | 2018 | 2017 | 2016 | 2015 | 2014 | 2013 | 2012

2021

(1)

ADCA Vedecké práce v zahraničných karentovaných časopisoch – impaktovaných
  1. RUSKOVÁ, Renáta - RAČKO, Dušan**. Entropic competition between supercoiled and torsionally relaxed chromatin fibers drives loop extrusion through pseudo-topologically bound cohesin. In Biology-Basel, 2021, vol. 10, no. 2, art. no. 130, [15] p. ISSN 2079-7737. Dostupné na: https://doi.org/10.3390/biology10020130 Typ: ADCA

2020

(3)

ADCA Vedecké práce v zahraničných karentovaných časopisoch – impaktovaných
  1. BENKOVÁ, Zuzana** - RIŠPANOVÁ, Lucia - CIFRA, Peter. Conformation of flexible and semiflexible chains confined in nanoposts array of various geometries. In Polymers : Open Access Polymer Science Journal, 2020, vol. 12, no. 5, art. no. 1064, [19] p. (2019: 3.426 - IF, Q1 - JCR, 0.704 - SJR, Q1 - SJR, karentované - CCC). (2020 - Current Contents). ISSN 2073-4360. Dostupné na: https://doi.org/10.3390/POLYM12051064 Typ: ADCA
  2. BLEHA, Tomáš - CIFRA, Peter**. Compression and stretching of single DNA molecules under channel confinement. In Journal of Physical Chemistry B, 2020, vol. 124, no. 9, p. 1691-1702. (2019: 2.857 - IF, Q2 - JCR, 0.943 - SJR, Q1 - SJR, karentované - CCC). (2020 - Current Contents, WOS, SCOPUS). ISSN 1520-6106. Dostupné na: https://doi.org/10.1021/acs.jpcb.9b11602 Typ: ADCA
  3. CAPPONI, Sara - ALVAREZ, Fernando - RAČKO, Dušan**. Free volume in a PVME polymer - Water solution. In Macromolecules, 2020, vol. 53, no. 12, p. 4770-4782. (2019: 5.918 - IF, Q1 - JCR, 2.064 - SJR, Q1 - SJR, karentované - CCC). (2020 - Current Contents). ISSN 0024-9297. Dostupné na: https://doi.org/10.1021/acs.macromol.0c00472 Typ: ADCA

2019

(3)

ABC Kapitoly vo vedeckých monografiách vydané v zahraničných vydavateľstvách
  1. BENKOVÁ, Zuzana** - CORDEIRO, M. Natália D. S. Coating of nanoparticles in aqueous solutions: Insights from molecular dynamics simulations. In Aqueous phase adsorption: theory, simulations, and experiments. - Boca Raton : Taylor & Francis, CRC Press, 2019, p. 135-155. ISBN 978-1-138-57521-9. Typ: ABC
ADCA Vedecké práce v zahraničných karentovaných časopisoch – impaktovaných
  1. BLEHA, Tomáš** - CIFRA, Peter. Force-displacement relations at compression of dsDNA macromolecules. In Journal of Chemical Physics, 2019, vol. 151, art.no. 014901, [10]p. (2018: 2.997 - IF, Q2 - JCR, 1.159 - SJR, Q1 - SJR, karentované - CCC). (2019 - Current Contents). ISSN 0021-9606. Dostupné na: https://doi.org/10.1063/1.5099522 Typ: ADCA
  2. RAČKO, Dušan - BENEDETTI, Fabrizio - DORIER, Julian - STASIAK, Andrzej**. Are TADs supercoiled? In Nucleic acids research, 2019, vol. 47, no. 2, p. 521-532. (2018: 11.147 - IF, Q1 - JCR, 8.636 - SJR, Q1 - SJR, karentované - CCC). (2019 - Current Contents). ISSN 0305-1048. Dostupné na: https://doi.org/10.1093/nar/gky1091 Typ: ADCA

2018

(6)

ABC Kapitoly vo vedeckých monografiách vydané v zahraničných vydavateľstvách
  1. BENEDETTI, Fabrizio - RAČKO, Dušan - DORIER, Julien - STASIAK, Andrzej. Introducing supecoiling into models of chromosome structure. In Modeling the 3D Conformation of Genomes. 1. vyd. - [S. l.] : CRC Press, 2018, p. 115-138. ISBN 978-1-13850-079-2. Typ: ABC
ADCA Vedecké práce v zahraničných karentovaných časopisoch – impaktovaných
  1. BLEHA, Tomáš** - CIFRA, Peter. Correlation anisotrophy and stiffness of DNA molecules confined in nanochannels. In Journal of Chemical Physics, 2018, vol. 149, iss. 5, art. no. 054903. (2017: 2.843 - IF, Q2 - JCR, 1.252 - SJR, Q1 - SJR, karentované - CCC). (2018 - Current Contents). ISSN 0021-9606. Dostupné na: https://doi.org/10.1063/1.5034219 Typ: ADCA
  2. BLEHA, Tomáš** - CIFRA, Peter. Stretching and compression of DNA by external forces under nanochannel confinement. In Soft Matter, 2018, vol. 14, p. 1247-1259. (2017: 3.709 - IF, Q1 - JCR, 1.493 - SJR, Q1 - SJR, karentované - CCC). (2018 - Current Contents, WOS, SCOPUS). ISSN 1744-683X. Dostupné na: https://doi.org/10.1039/c7sm02413d Typ: ADCA
  3. RAČKO, Dušan* - BENEDETTI, Fabrizio - DORIER, Julien - STASIAK, Andrzej**. Transcription-induced supercoiling as the driving force of chromatin loop extrusion during formation of TADs in interphase chromosomes. In Nucleic acids research, 2018, vol. 46, no. 4, p. 1648-1660. (2017: 11.561 - IF, Q1 - JCR, 9.025 - SJR, Q1 - SJR, karentované - CCC). (2018 - Current Contents). ISSN 0305-1048. Dostupné na: https://doi.org/10.1093/nar/gkx1123 Typ: ADCA
  4. RAČKO, Dušan* - BENEDETTI, Fabrizio* - GOUNDAROULIS, Dimos - STASIAK, Andrzej**. Chromatin loop extrusion and chromatin unknotting. In Polymers : Open Access Polymer Science Journal, 2018, vol. 10, iss. 10, art. no. 1126. (2017: 2.935 - IF, Q1 - JCR, 0.852 - SJR, Q1 - SJR, karentované - CCC). (2018 - Current Contents). ISSN 2073-4360. Dostupné na: https://doi.org/10.3390/polym10101126 Typ: ADCA
  5. RIŠPANOVÁ, Lucia - BENKOVÁ, Zuzana - CIFRA, Peter**. Block-copolymer of flexible and semi-flexible block confined in nanopost array. In Polymers : Open Access Polymer Science Journal, 2018, vol. 10, no. 12, art. no. 1301. (2017: 2.935 - IF, Q1 - JCR, 0.852 - SJR, Q1 - SJR, karentované - CCC). (2018 - Current Contents). ISSN 2073-4360. Dostupné na: https://doi.org/10.3390/polym10121301 Typ: ADCA

2017

(4)

ABC Kapitoly vo vedeckých monografiách vydané v zahraničných vydavateľstvách
  1. RAČKO, Dušan - BENEDETTI, Fabrizio - DORIER, Julien - BURNIER, Yannis - STASIAK, Andrzej. Molecular dynamics simulation of supercoiled, knotted, and catenated DNA molecules, including modeling of action of DNA gyrase. In The Bacterial Nucleoid: Methods and Protocols. Vol. 1624. - Springer Science+Business Media LLC, 2017, p. 339-372. ISBN 978-1-4939-7098-8. Typ: ABC
ADCA Vedecké práce v zahraničných karentovaných časopisoch – impaktovaných
  1. BENEDETTI, Fabrizio - RAČKO, Dušan - DORIER, Julien - BURNIER, Yannis - STASIAK, Andrzej. Transcription-induced supercoiling explains formationof self-interacting chromatin domains in S. pombe. In Nucleic acids research, 2017, vol. 45, no. 17, p. 9850-9859. (2016: 10.162 - IF, Q1 - JCR, 7.883 - SJR, Q1 - SJR, karentované - CCC). (2017 - Current Contents). ISSN 0305-1048. Dostupné na: https://doi.org/10.1093/nar/gkx716 Typ: ADCA
  2. BENKOVÁ, Zuzana - RIŠPANOVÁ, Lucia - CIFRA, Peter. Effect of chain stiffness for semiflexible macromolecules in array of cylindrical nanoposts. In Journal of Chemical Physics, 2017, vol. 147, art. no. 134907. (2016: 2.965 - IF, Q2 - JCR, 1.486 - SJR, Q1 - SJR, karentované - CCC). (2017 - Current Contents, WOS, SCOPUS). ISSN 0021-9606. Dostupné na: https://doi.org/10.1063/1.4991649 Typ: ADCA
  3. BENKOVÁ, Zuzana - RIŠPANOVÁ, Lucia - CIFRA, Peter. Structural behavior of a semiflexible polymer chain in an array of nanoposts. In Polymers : Open Access Polymer Science Journal, 2017, vol. 9, no. 8, art. no. 313. (2016: 3.364 - IF, Q1 - JCR, 0.977 - SJR, Q1 - SJR, karentované - CCC). (2017 - Current Contents). ISSN 2073-4360. Dostupné na: https://doi.org/10.3390/polym9080313 Typ: ADCA

2016

(3)

ADCA Vedecké práce v zahraničných karentovaných časopisoch – impaktovaných
  1. BENKOVÁ, Zuzana - NÁMER, Pavol - CIFRA, Peter. Comparison of a stripe and slab confinement for ring and linear macromolecules in nanochannel. In Soft Matter, 2016, vol. 12, no. 40, p. 8425-8439. (2015: 3.798 - IF, Q1 - JCR, 1.634 - SJR, Q1 - SJR, karentované - CCC). (2016 - Current Contents). ISSN 1744-683X. Dostupné na: https://doi.org/10.1039/c6sm01507g Typ: ADCA
  2. BHANDARY, Debdip - BENKOVÁ, Zuzana - CORDEIRO, M. Natália D. S. - SINGH, Jayant K. Molecular dynamics study of wetting behavior of grafted thermo-responsive PNIPAAm brushes. In Soft Matter, 2016, vol. 12, p. 3093-3102. (2015: 3.798 - IF, Q1 - JCR, 1.634 - SJR, Q1 - SJR, karentované - CCC). (2016 - Current Contents). ISSN 1744-683X. Dostupné na: https://doi.org/10.1039/c5sm02684a Typ: ADCA
  3. RAWDON, Eric J. - DORIER, Julien - RAČKO, Dušan - MILLETT, Kenneth C. - STASIAK, Andrzej. How topoisomerase IV can efficiently unknot and decatenate negatively supercoiled DNA molecules without causing their torsional relaxation. In Nucleic acids research, 2016, vol. 44, no. 10, p. 4528-4538. (2015: 9.202 - IF, Q1 - JCR, 7.358 - SJR, Q1 - SJR, karentované - CCC). (2016 - Current Contents). ISSN 0305-1048. Dostupné na: https://doi.org/10.1093/nar/gkw311 Typ: ADCA

2015

(8)

ADCA Vedecké práce v zahraničných karentovaných časopisoch – impaktovaných
  1. BENEDETTI, Fabrizio - JAPARIDZE, Aleksandre - DORIER, Julien - RAČKO, Dušan - KWAPICH, Robert - BURNIER, Yannis - DIETLER, Giovanni - STASIAK, Andrzej. Effects of physiological self-crowding of DNA on shape and biological properties of DNA molecules with various levels of supercoiling. In Nucleic acids research, 2015, vol. 43, no. 4, p. 2390-2399. (2014: 9.112 - IF, Q1 - JCR, 6.640 - SJR, Q1 - SJR, karentované - CCC). (2015 - Current Contents). ISSN 0305-1048. Dostupné na: https://doi.org/10.1093/nar/gkv055 Typ: ADCA
  2. BENKOVÁ, Zuzana - CORDEIRO, M. Natalia D. S. Molecular dynamics simulations of poly(ethylene oxide) grafted onto silica immersed in melt of homopolymers. In Langmuir, 2015, vol. 31, p. 10254-10264. (2014: 4.457 - IF, Q1 - JCR, 1.810 - SJR, Q1 - SJR, karentované - CCC). (2015 - Current Contents). ISSN 0743-7463. Dostupné na: https://doi.org/10.1021/acs.langmuir.5b01890 Typ: ADCA
  3. BENKOVÁ, Zuzana - NÁMER, Pavol - CIFRA, Peter. Stripe to slab confinement for the linearization of macromolecules in nanochannels. In Soft Matter, 2015, vol. 11, p. 2279-2289. (2014: 4.029 - IF, Q1 - JCR, 1.742 - SJR, Q1 - SJR, karentované - CCC). (2015 - Current Contents). ISSN 1744-683X. Dostupné na: https://doi.org/10.1039/c4sm02382j Typ: ADCA
  4. PALENČÁR, Peter - BLEHA, Tomáš. Bending and kinking in helical polymers. In Journal of Polymer Science. Part B.Polymer Physics, 2015, vol. 53, p. 1345-1357. (2014: 3.830 - IF, Q1 - JCR, 1.503 - SJR, Q1 - SJR, karentované - CCC). (2015 - Current Contents). ISSN 0887-6266. Dostupné na: https://doi.org/10.1002/polb.23771 Typ: ADCA
  5. PLAŠIENKA, Dušan - CIFRA, Peter - MARTOŇÁK, Roman. Structural transformation between long and short-chain form of liquid sulfur from ab initio molecular dynamics. In Journal of Chemical Physics, 2015, vol. 142, art. no. 154502. (2014: 2.952 - IF, Q1 - JCR, 1.446 - SJR, Q1 - SJR, karentované - CCC). (2015 - Current Contents). ISSN 0021-9606. Dostupné na: https://doi.org/10.1063/1.4917040 Typ: ADCA
  6. RAČKO, Dušan - BENEDETTI, Fabrizio - DORIER, Julien - BURNIER, Yannis - STASIAK, Andrzej. Generation of supercoils in nicked and grapped DNA drives DNA unknotting and postreplicative decatenation. In Nucleic acids research, 2015, vol. 43, no. 15, p. 7229-7236. (2014: 9.112 - IF, Q1 - JCR, 6.640 - SJR, Q1 - SJR, karentované - CCC). (2015 - Current Contents). ISSN 0305-1048. Dostupné na: https://doi.org/10.1093/nar/gkv683 Typ: ADCA
  7. RAČKO, Dušan - CIFRA, Peter. Arm retraction and escape transition in semi-flexible star polymer under cylindrical confinement. In Journal of molecular modeling, 2015, vol. 21, art.no. 186. (2014: 1.736 - IF, Q2 - JCR, 0.510 - SJR, Q2 - SJR, karentované - CCC). (2015 - Current Contents). ISSN 1610-2940. Dostupné na: https://doi.org/10.1007/s00894-015-2735-9 Typ: ADCA
ADMB Vedecké práce v zahraničných neimpaktovaných časopisoch registrovaných v databázach Web of Science alebo SCOPUS
  1. CZANIKOVÁ, Klaudia - KRUPA, Igor - RAČKO, Dušan - ŠMATKO, Vasilij - CAMPO, Eva M. - PAWLOVA, Eva - OMASTOVÁ, Mária. In situ electron microscopy of Braille microsystems: photoactuation of ethylene vinyl acetate/carbon nanotube composites. In Materials Research Express, 2015, vol. 2, art.no. 025601. (2015 - SCOPUS). ISSN 2053-1591. Dostupné na: https://doi.org/10.1088/2053-1591/2/2/025601 Typ: ADMB

2014

(2)

ADCA Vedecké práce v zahraničných karentovaných časopisoch – impaktovaných
  1. PALENČÁR, Peter - BLEHA, Tomáš. Buckling transition in long alpha-helices. In Journal of Chemical Physics, 2014, vol. 141, 174901 - 12 p. (2013: 3.122 - IF, Q1 - JCR, 1.532 - SJR, karentované - CCC). (2014 - Current Contents). ISSN 0021-9606. Dostupné na: https://doi.org/10.1063/1.4900573 Typ: ADCA
  2. RAČKO, Dušan. The free volume of condensed phases confined in a nanopore as seen by computer simulations and compared to PALS. In Acta Physica Polonica A, 2014, vol. 125, no. 3, p. 785-788. (2013: 0.604 - IF, Q4 - JCR, 0.345 - SJR, karentované - CCC). (2014 - Current Contents, WOS, SCOPUS). ISSN 1898-794X. Dostupné na: https://doi.org/10.12693/APhysPolA.125.785 Typ: ADCA

2013

(8)

ADCA Vedecké práce v zahraničných karentovaných časopisoch – impaktovaných
  1. BENKOVÁ, Zuzana - CIFRA, Peter. Comparison of linear and ring DNA macromolecules moderately and strongly confined in nanochannels. In Biochemical society transactions, 2013, vol. 41, p.625 -629. (2012: 2.587 - IF, Q3 - JCR, 2.087 - SJR, Q1 - SJR, karentované - CCC). (2013 - Current Contents). ISSN 0300-5127. Dostupné na: https://doi.org/10.1042/BST20120279 Typ: ADCA
  2. CZANIKOVÁ, Klaudia - TORRAS, Núria - ESTEVE, Jaume - KRUPA, Igor - KASÁK, Peter - PAVLOVA, Ewa - RAČKO, Dušan - CHODÁK, Ivan - OMASTOVÁ, Mária. Nanocomposite photoactuators based on an ethylene vinyl acetate copolymer filled with carbon nanotubes. In Sensors and Actuators B-Chemical, 2013, vol. 186, p. 701 - 710. (2012: 3.535 - IF, Q1 - JCR, 1.412 - SJR, Q1 - SJR, karentované - CCC). (2013 - Current Contents). ISSN 0925-4005. Dostupné na: https://doi.org/10.1016/j.snb.2013.06.054 Typ: ADCA
  3. DANKO, Martin - ANDICSOVÁ, Anita - HRDLOVIČ, Pavol - RAČKO, Dušan - VÉGH, Daniel. Spectral characteristics of carbonyl substituted 2,2´-bithiophenes in polymer matrices and low polar solvents. In Photochemical and Photobiological Sciences, 2013, vol. 12, p. 1210 - 1219. (2012: 2.923 - IF, Q2 - JCR, 1.060 - SJR, Q2 - SJR, karentované - CCC). (2013 - Current Contents). ISSN 1474-905X. Dostupné na: https://doi.org/10.1039/c3pp50049g Typ: ADCA
  4. PALENČÁR, Peter - BLEHA, Tomáš. Folding of alpha-helices into bundles in long polyalanines. In Computational and Theoretical Chemistry, 2013, vol. 1006, p. 62- 69. ISSN 2210-271X. Dostupné na: https://doi.org/10.1016/j.comptc.2012.11.012 Typ: ADCA
  5. PALENČÁR, Peter - BLEHA, Tomáš. Gas-phase compaction of helical polymers. In Polymer : the International Journal for the Science and Technology of Polymers, 2013, vol. 54, p. 4955 - 4962. (2012: 3.379 - IF, Q1 - JCR, 1.589 - SJR, Q1 - SJR, karentované - CCC). (2013 - Current Contents). ISSN 0032-3861. Dostupné na: https://doi.org/10.1016/j.polymer.2013.06.058 Typ: ADCA
  6. RAČKO, Dušan - CIFRA, Peter. Segregation of semiflexible macromolecules in nanochannel. In Journal of Chemical Physics, 2013, vol. 138, art.no. 184904. (2012: 3.164 - IF, Q1 - JCR, 1.832 - SJR, Q1 - SJR, karentované - CCC). (2013 - Current Contents). ISSN 0021-9606. Dostupné na: https://doi.org/10.1063/1.4803674 Typ: ADCA
ADMB Vedecké práce v zahraničných neimpaktovaných časopisoch registrovaných v databázach Web of Science alebo SCOPUS
  1. RAČKO, Dušan - KRIŠTIAK, Jozef. The free volume dynamics. In Materials Science Forum, 2013, vol. 733, p. 33 - 37. (2013 - WOS, SCOPUS). ISSN 0255-5476. Dostupné na: https://doi.org/10.4028/www.scientific.net/MSF.733.33 Typ: ADMB
  2. RAČKO, Dušan. On the relatioship of the relative intensity I3 and a cavity number as obtained from computer simulations. In Materials Science Forum, 2013, vol. 733, p. 183-189. (2013 - WOS, SCOPUS). ISSN 0255-5476. Dostupné na: https://doi.org/10.4028/www.scientific.net/MSF.733.183 Typ: ADMB

2012

(6)

ADCA Vedecké práce v zahraničných karentovaných časopisoch – impaktovaných
  1. BENKOVÁ, Zuzana - CIFRA, Peter. Simulation of semiflexible cyclic and linear chains moderately and strongly confined in nanochannels. In Macromolecules, 2012, vol. 45, p. 2597 - 2608. (2011: 5.167 - IF, Q1 - JCR, 2.556 - SJR, Q1 - SJR, karentované - CCC). (2012 - Current Contents). ISSN 0024-9297. Dostupné na: https://doi.org/10.1021/ma202730c Typ: ADCA
  2. BENKOVÁ, Zuzana - CORDEIRO, M. Natália D. S. Molecular dynamics study of poly(ethylene oxide) chains densely grafted on siloxane surface in dry conditions. In Journal of Physical Chemistry C, 2012, vol. 116, p. 3576 - 3584. (2011: 4.805 - IF, Q1 - JCR, 2.339 - SJR, Q1 - SJR, karentované - CCC). (2012 - Current Contents). ISSN 1932-7447. Dostupné na: https://doi.org/10.1021/jp209802p Typ: ADCA
  3. CIFRA, Peter - BLEHA, Tomáš. Detection of chain backfolding in simulation of DNA in nanofluidic channels. In SOFT MATTER, 2012, vol. 8, p. 9022 - 9028. (2011: 4.390 - IF, Q1 - JCR, 2.007 - SJR, Q1 - SJR, karentované - CCC). (2012 - Current Contents). ISSN 1744-683X. Dostupné na: https://doi.org/10.1039/c2sm26128f Typ: ADCA
  4. CIFRA, Peter - BLEHA, Tomáš. Free energy of polymers confined in open and closed cavities. In Macromolecular Theory and Simulations, 2012, vol. 21, p. 15 - 23. (2011: 1.709 - IF, Q2 - JCR, 0.533 - SJR, Q2 - SJR, karentované - CCC). (2012 - Current Contents). ISSN 1022-1344. Dostupné na: https://doi.org/10.1002/mats.201100061 Typ: ADCA
  5. CIFRA, Peter. Weak -to-strong confinement transition of semi-flexible macromolecules in slit and in channel. In Journal of Chemical Physics, 2012, vol. 136, art.no.024902. (2011: 3.333 - IF, Q1 - JCR, 1.845 - SJR, Q1 - SJR, karentované - CCC). (2012 - Current Contents). ISSN 0021-9606. Dostupné na: https://doi.org/10.1063/1.3674304 Typ: ADCA
  6. REITH, Daniel - CIFRA, Peter - STASIAK, Andrzej - VIRNAU, Peter. Effective stiffening of DNA due to nematic ordering causes DNA molecules packed in phage capsids to preferentially form torus knots. In Nucleic acids research, 2012, vol. 40, iss. 11, p. 5129-5137. (2011: 8.026 - IF, Q1 - JCR, 5.976 - SJR, Q1 - SJR, karentované - CCC). (2012 - Current Contents). ISSN 0305-1048. Dostupné na: https://doi.org/10.1093/nar/gks157 Typ: ADCA