TY  - JOUR
AU  - Ivić, Zoran
AU  - Čevizović, Dalibor
AU  - Pržulj, Željko
AU  - Lazarides, Nikos
AU  - Tsironis, Giorgos P.
PY  - 2021
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/8920
AB  - We focus on self-induced transparency (SIT) in the propagation of a pulse in a dispersive medium. The latter can be an ordinary optical medium or, more interestingly, a quantum metamaterial. In both cases we consider a sequence of two level atoms each with a characteristic resonant frequency ω0. The propagation features are controlled by the ratio of the pulse frequency ω over the dipole resonant frequency, i.e. on the quantity X=ω/ω0. We consider analytically two pulse limits, viz. the sharp line limit as well as the inhomogeneouly broadened case. In the first case we find that for pulse frequencies larger than ω0, i.e. for X>1 the SIT pulse may be fully stopped through absorption by the medium provided its time width exceeds a certain critical value. In the latter case of inhomogeneously broadened medium we find no such frequency restrictions provided the pulse is wide enough. As a result an SIT pulse can be arbitrarily arrested by the absorbing medium. This dispersion-induced pulse stopping is a manifestation of the quantum nature of the medium and of possible use in metamaterial applications. © 2020 Elsevier Ltd
T2  - Chaos, Solitons and Fractals
T1  - Dispersive properties of self–induced transparency in two–level media
VL  - 143
SP  - 110611
DO  - 10.1016/j.chaos.2020.110611
ER  - 

@article{
author = "Ivić, Zoran and Čevizović, Dalibor and Pržulj, Željko and Lazarides, Nikos and Tsironis, Giorgos P.",
year = "2021",
abstract = "We focus on self-induced transparency (SIT) in the propagation of a pulse in a dispersive medium. The latter can be an ordinary optical medium or, more interestingly, a quantum metamaterial. In both cases we consider a sequence of two level atoms each with a characteristic resonant frequency ω0. The propagation features are controlled by the ratio of the pulse frequency ω over the dipole resonant frequency, i.e. on the quantity X=ω/ω0. We consider analytically two pulse limits, viz. the sharp line limit as well as the inhomogeneouly broadened case. In the first case we find that for pulse frequencies larger than ω0, i.e. for X>1 the SIT pulse may be fully stopped through absorption by the medium provided its time width exceeds a certain critical value. In the latter case of inhomogeneously broadened medium we find no such frequency restrictions provided the pulse is wide enough. As a result an SIT pulse can be arbitrarily arrested by the absorbing medium. This dispersion-induced pulse stopping is a manifestation of the quantum nature of the medium and of possible use in metamaterial applications. © 2020 Elsevier Ltd",
journal = "Chaos, Solitons and Fractals",
title = "Dispersive properties of self–induced transparency in two–level media",
volume = "143",
pages = "110611",
doi = "10.1016/j.chaos.2020.110611"
}

Ivić, Z., Čevizović, D., Pržulj, Ž., Lazarides, N.,& Tsironis, G. P.. (2021). Dispersive properties of self–induced transparency in two–level media. in Chaos, Solitons and Fractals, 143, 110611.
https://doi.org/10.1016/j.chaos.2020.110611

Ivić Z, Čevizović D, Pržulj Ž, Lazarides N, Tsironis GP. Dispersive properties of self–induced transparency in two–level media. in Chaos, Solitons and Fractals. 2021;143:110611.
doi:10.1016/j.chaos.2020.110611 .

Ivić, Zoran, Čevizović, Dalibor, Pržulj, Željko, Lazarides, Nikos, Tsironis, Giorgos P., "Dispersive properties of self–induced transparency in two–level media" in Chaos, Solitons and Fractals, 143 (2021):110611,
https://doi.org/10.1016/j.chaos.2020.110611 . .

TY  - JOUR
AU  - Čevizović, Dalibor
AU  - Chizhov, Alexei V.
AU  - Ivić, Zoran
AU  - Reshetnyak, A.A.
PY  - 2021
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/9158
AB  - In this paper, we investigate the possibility of stable migration of charge carriers over long distances in DNA-like macromolecular structures in the form of an adiabatic soliton and derive the conditions for the formation of solitons. We find two types of soliton solutions: symmetric and antisymmetric. Comparing the energy of both types of soliton solutions with the energy of free extra charge, we find the region of the system parameters in which the soliton states are more energetically favorable than the states of quasi-free charges. At the same time, which of the two mentioned soliton solutions corresponds to an energetically favorable state depends on the ratio of the energy parameters of the molecular structure. © 2021, ITMO University. All rights reserved.
T2  - Nanosystems: Physics, Chemistry, Mathematics
T1  - On the long-distance charge transport in DNA-like macromolecules
VL  - 12
IS  - 1
SP  - 32
EP  - 41
DO  - 10.17586/2220-8054-2021-12-1-32-41
ER  - 

@article{
author = "Čevizović, Dalibor and Chizhov, Alexei V. and Ivić, Zoran and Reshetnyak, A.A.",
year = "2021",
abstract = "In this paper, we investigate the possibility of stable migration of charge carriers over long distances in DNA-like macromolecular structures in the form of an adiabatic soliton and derive the conditions for the formation of solitons. We find two types of soliton solutions: symmetric and antisymmetric. Comparing the energy of both types of soliton solutions with the energy of free extra charge, we find the region of the system parameters in which the soliton states are more energetically favorable than the states of quasi-free charges. At the same time, which of the two mentioned soliton solutions corresponds to an energetically favorable state depends on the ratio of the energy parameters of the molecular structure. © 2021, ITMO University. All rights reserved.",
journal = "Nanosystems: Physics, Chemistry, Mathematics",
title = "On the long-distance charge transport in DNA-like macromolecules",
volume = "12",
number = "1",
pages = "32-41",
doi = "10.17586/2220-8054-2021-12-1-32-41"
}

Čevizović, D., Chizhov, A. V., Ivić, Z.,& Reshetnyak, A.A.. (2021). On the long-distance charge transport in DNA-like macromolecules. in Nanosystems: Physics, Chemistry, Mathematics, 12(1), 32-41.
https://doi.org/10.17586/2220-8054-2021-12-1-32-41

Čevizović D, Chizhov AV, Ivić Z, Reshetnyak A. On the long-distance charge transport in DNA-like macromolecules. in Nanosystems: Physics, Chemistry, Mathematics. 2021;12(1):32-41.
doi:10.17586/2220-8054-2021-12-1-32-41 .

Čevizović, Dalibor, Chizhov, Alexei V., Ivić, Zoran, Reshetnyak, A.A., "On the long-distance charge transport in DNA-like macromolecules" in Nanosystems: Physics, Chemistry, Mathematics, 12, no. 1 (2021):32-41,
https://doi.org/10.17586/2220-8054-2021-12-1-32-41 . .

TY  - JOUR
AU  - Gombar, Sonja
AU  - Mali, Petar
AU  - Radošević, Slobodan
AU  - Tekić, Jasmina
AU  - Pantić, Milan
AU  - Pavkov-Hrvojević, Milica
PY  - 2021
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/9518
AB  - The response function and largest Lyapunov exponent analysis were applied to the driven overdamped Frenkel-Kontorova model with two types of anharmonic convex interparticle potentials. In both cases model reduces to a single particle model for integer values of winding number. It is shown that the mirror image of the amplitude dependence of critical depinning force and largest Lyapunov exponent observed recently in the standard Frenkel-Kontorova model (Odavić et al 2017 Commun. Nonlinear Sci. Numer. Simul. 47, 100) is not retained generally. Behaviour of systems with relatively strong interparticle force was examined and evidence for the appearance of mode-locking phenomenon in both directions of particles’ motion is presented. © 2021 IOP Publishing Ltd.
T2  - Physica Scripta
T1  - Influence of anharmonic convex interparticle potential and Shapiro steps in the opposite direction of driving force
VL  - 96
IS  - 3
SP  - 035211
DO  - 10.1088/1402-4896/abd5ec
ER  - 

@article{
author = "Gombar, Sonja and Mali, Petar and Radošević, Slobodan and Tekić, Jasmina and Pantić, Milan and Pavkov-Hrvojević, Milica",
year = "2021",
abstract = "The response function and largest Lyapunov exponent analysis were applied to the driven overdamped Frenkel-Kontorova model with two types of anharmonic convex interparticle potentials. In both cases model reduces to a single particle model for integer values of winding number. It is shown that the mirror image of the amplitude dependence of critical depinning force and largest Lyapunov exponent observed recently in the standard Frenkel-Kontorova model (Odavić et al 2017 Commun. Nonlinear Sci. Numer. Simul. 47, 100) is not retained generally. Behaviour of systems with relatively strong interparticle force was examined and evidence for the appearance of mode-locking phenomenon in both directions of particles’ motion is presented. © 2021 IOP Publishing Ltd.",
journal = "Physica Scripta",
title = "Influence of anharmonic convex interparticle potential and Shapiro steps in the opposite direction of driving force",
volume = "96",
number = "3",
pages = "035211",
doi = "10.1088/1402-4896/abd5ec"
}

Gombar, S., Mali, P., Radošević, S., Tekić, J., Pantić, M.,& Pavkov-Hrvojević, M.. (2021). Influence of anharmonic convex interparticle potential and Shapiro steps in the opposite direction of driving force. in Physica Scripta, 96(3), 035211.
https://doi.org/10.1088/1402-4896/abd5ec

Gombar S, Mali P, Radošević S, Tekić J, Pantić M, Pavkov-Hrvojević M. Influence of anharmonic convex interparticle potential and Shapiro steps in the opposite direction of driving force. in Physica Scripta. 2021;96(3):035211.
doi:10.1088/1402-4896/abd5ec .

Gombar, Sonja, Mali, Petar, Radošević, Slobodan, Tekić, Jasmina, Pantić, Milan, Pavkov-Hrvojević, Milica, "Influence of anharmonic convex interparticle potential and Shapiro steps in the opposite direction of driving force" in Physica Scripta, 96, no. 3 (2021):035211,
https://doi.org/10.1088/1402-4896/abd5ec . .

TY  - JOUR
AU  - Rahmonov, Ilhom R.
AU  - Tekić, Jasmina
AU  - Mali, Petar
AU  - Irie, Akinobu
AU  - Shukrinov, Yury M.
PY  - 2020
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/8809
AB  - Examination of an annular system of underdamped Josephson junctions in the presence of external radiation showed that the ability of the system to lock with some external radiation was determined not only by the number but also by the type of rotating excitations (fluxons or antifluxons). Shapiro steps can be observed in the current-voltage characteristic only in the system with trapped fluxons or in the system with fluxon-antifluxon pairs. If the trapped fluxons circulate simultaneously with fluxon-antifluxon pairs, there are no Shapiro steps regardless of the amplitude or frequency of the applied external radiation. © 2020 American Physical Society.
T2  - Physical Review B
T1  - Ac-driven annular Josephson junctions: The missing Shapiro steps
VL  - 101
IS  - 2
SP  - 024512
DO  - 10.1103/PhysRevB.101.024512
ER  - 

@article{
author = "Rahmonov, Ilhom R. and Tekić, Jasmina and Mali, Petar and Irie, Akinobu and Shukrinov, Yury M.",
year = "2020",
abstract = "Examination of an annular system of underdamped Josephson junctions in the presence of external radiation showed that the ability of the system to lock with some external radiation was determined not only by the number but also by the type of rotating excitations (fluxons or antifluxons). Shapiro steps can be observed in the current-voltage characteristic only in the system with trapped fluxons or in the system with fluxon-antifluxon pairs. If the trapped fluxons circulate simultaneously with fluxon-antifluxon pairs, there are no Shapiro steps regardless of the amplitude or frequency of the applied external radiation. © 2020 American Physical Society.",
journal = "Physical Review B",
title = "Ac-driven annular Josephson junctions: The missing Shapiro steps",
volume = "101",
number = "2",
pages = "024512",
doi = "10.1103/PhysRevB.101.024512"
}

Rahmonov, I. R., Tekić, J., Mali, P., Irie, A.,& Shukrinov, Y. M.. (2020). Ac-driven annular Josephson junctions: The missing Shapiro steps. in Physical Review B, 101(2), 024512.
https://doi.org/10.1103/PhysRevB.101.024512

Rahmonov IR, Tekić J, Mali P, Irie A, Shukrinov YM. Ac-driven annular Josephson junctions: The missing Shapiro steps. in Physical Review B. 2020;101(2):024512.
doi:10.1103/PhysRevB.101.024512 .

Rahmonov, Ilhom R., Tekić, Jasmina, Mali, Petar, Irie, Akinobu, Shukrinov, Yury M., "Ac-driven annular Josephson junctions: The missing Shapiro steps" in Physical Review B, 101, no. 2 (2020):024512,
https://doi.org/10.1103/PhysRevB.101.024512 . .

TY  - JOUR
AU  - Satarić, Miljko V.
AU  - Nemeš, Tomas
AU  - Satarić, Bogdan
AU  - Sekulić, Dalibor
AU  - Zdravković, Slobodan
PY  - 2020
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/9059
AB  - The cytoskeleton of cilia and flagella is so called axoneme a stable cylindrical architecture of nine microtubule doublets. Axoneme performs periodic bending motion by utilizing specific dynein motor family powered by ATP hydrolysis. It is still unclear how this highly organized “ciliary beat” is being initiated and strongly coordinated by the combined action of hundreds dynein motors. Based on the experimental evidences we here elaborate a plausible scenario in which actually calcium ions play the roles of catalytic activators and coordinators of dynein attachments doing it in superposition with already known mechanical control tools of “ciliary beat”. Polyelectrolyte properties of microtubules incorporated in axoneme doublets enable the formation and propagation of soliton-like “ionic clouds” of Ca2+ ions along these “coaxial nanocables”. The sliding speed of such Ca2+ “clouds” along microtubule doublets is comparable with the speed of propagation of “ciliary beat” itself. We elaborated the interplay between influx of Ca2+ ions in ciliary based body and the sliding of microtubule triplets therein. In second segment we considered how the dynein motors activated by Ca2+ ions contained within solitonic “ionic clouds” in competition with axoneme curvature regulate ciliary and flagellar beating.
T2  - Biosystems
T1  - Calcium ions tune the beats of cilia and flagella
VL  - 196
SP  - 104172
DO  - 10.1016/j.biosystems.2020.104172
ER  - 

@article{
author = "Satarić, Miljko V. and Nemeš, Tomas and Satarić, Bogdan and Sekulić, Dalibor and Zdravković, Slobodan",
year = "2020",
abstract = "The cytoskeleton of cilia and flagella is so called axoneme a stable cylindrical architecture of nine microtubule doublets. Axoneme performs periodic bending motion by utilizing specific dynein motor family powered by ATP hydrolysis. It is still unclear how this highly organized “ciliary beat” is being initiated and strongly coordinated by the combined action of hundreds dynein motors. Based on the experimental evidences we here elaborate a plausible scenario in which actually calcium ions play the roles of catalytic activators and coordinators of dynein attachments doing it in superposition with already known mechanical control tools of “ciliary beat”. Polyelectrolyte properties of microtubules incorporated in axoneme doublets enable the formation and propagation of soliton-like “ionic clouds” of Ca2+ ions along these “coaxial nanocables”. The sliding speed of such Ca2+ “clouds” along microtubule doublets is comparable with the speed of propagation of “ciliary beat” itself. We elaborated the interplay between influx of Ca2+ ions in ciliary based body and the sliding of microtubule triplets therein. In second segment we considered how the dynein motors activated by Ca2+ ions contained within solitonic “ionic clouds” in competition with axoneme curvature regulate ciliary and flagellar beating.",
journal = "Biosystems",
title = "Calcium ions tune the beats of cilia and flagella",
volume = "196",
pages = "104172",
doi = "10.1016/j.biosystems.2020.104172"
}

Satarić, M. V., Nemeš, T., Satarić, B., Sekulić, D.,& Zdravković, S.. (2020). Calcium ions tune the beats of cilia and flagella. in Biosystems, 196, 104172.
https://doi.org/10.1016/j.biosystems.2020.104172

Satarić MV, Nemeš T, Satarić B, Sekulić D, Zdravković S. Calcium ions tune the beats of cilia and flagella. in Biosystems. 2020;196:104172.
doi:10.1016/j.biosystems.2020.104172 .

Satarić, Miljko V., Nemeš, Tomas, Satarić, Bogdan, Sekulić, Dalibor, Zdravković, Slobodan, "Calcium ions tune the beats of cilia and flagella" in Biosystems, 196 (2020):104172,
https://doi.org/10.1016/j.biosystems.2020.104172 . .

TY  - JOUR
AU  - Satarić, Miljko V.
AU  - Zdravković, Slobodan
AU  - Nemeš, Tomas
AU  - Satarić, Bogdan M.
PY  - 2020
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/9719
AB  - To adapt to changing environments cells must signal and signaling requires messengers whose concentration varies with time in space. We here consider the messenger role of calcium ions implicated in regulation of the wave-like bending dynamics of cilia and flagella. The emphasis is on microtubules as polyelectrolytes serving as transmission lines for the flow of Ca2+ signals in the axoneme. This signaling is superimposed with a geometric clutch mechanism for the regulation of flagella bending dynamics and our modeling produces results in agreement with experimental data.
T2  - European Biophysics Journal
T1  - Calcium signaling modulates the dynamics of cilia and flagella
VL  - 49
IS  - 7
SP  - 619
EP  - 631
DO  - 10.1007/s00249-020-01471-8
ER  - 

@article{
author = "Satarić, Miljko V. and Zdravković, Slobodan and Nemeš, Tomas and Satarić, Bogdan M.",
year = "2020",
abstract = "To adapt to changing environments cells must signal and signaling requires messengers whose concentration varies with time in space. We here consider the messenger role of calcium ions implicated in regulation of the wave-like bending dynamics of cilia and flagella. The emphasis is on microtubules as polyelectrolytes serving as transmission lines for the flow of Ca2+ signals in the axoneme. This signaling is superimposed with a geometric clutch mechanism for the regulation of flagella bending dynamics and our modeling produces results in agreement with experimental data.",
journal = "European Biophysics Journal",
title = "Calcium signaling modulates the dynamics of cilia and flagella",
volume = "49",
number = "7",
pages = "619-631",
doi = "10.1007/s00249-020-01471-8"
}

Satarić, M. V., Zdravković, S., Nemeš, T.,& Satarić, B. M.. (2020). Calcium signaling modulates the dynamics of cilia and flagella. in European Biophysics Journal, 49(7), 619-631.
https://doi.org/10.1007/s00249-020-01471-8

Satarić MV, Zdravković S, Nemeš T, Satarić BM. Calcium signaling modulates the dynamics of cilia and flagella. in European Biophysics Journal. 2020;49(7):619-631.
doi:10.1007/s00249-020-01471-8 .

Satarić, Miljko V., Zdravković, Slobodan, Nemeš, Tomas, Satarić, Bogdan M., "Calcium signaling modulates the dynamics of cilia and flagella" in European Biophysics Journal, 49, no. 7 (2020):619-631,
https://doi.org/10.1007/s00249-020-01471-8 . .

TY  - JOUR
AU  - Mali, Petar
AU  - Šakota, Anđela
AU  - Tekić, Jasmina
AU  - Radošević, Slobodan
AU  - Pantić, Milan
AU  - Pavkov-Hrvojević, Milica
PY  - 2020
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/8931
AB  - We demonstrate, using the example of the dc+ac driven overdamped Frenkel-Kontorova model, that an easily calculable measure of complexity can be used for the examination of Shapiro steps in the presence of thermal noise. In real systems, thermal noise causes melting or even disappearance of Shapiro steps, which makes their analysis in the standard way from the response function difficult. Unlike in the conventional approach, here, by calculating the Kolmogorov complexity of certain areas in the response function, we were able to detect Shapiro steps, measure their size with the desired precision, and examine their temperature dependence. The aim of this work is to provide scientists, particularly experimentalists, with an unconventional, but practical and easy tool for examination of Shapiro steps in real systems.
T2  - Physical Review E
T1  - Complexity of Shapiro steps
VL  - 101
IS  - 3
SP  - 032203
DO  - 10.1103/PhysRevE.101.032203
ER  - 

@article{
author = "Mali, Petar and Šakota, Anđela and Tekić, Jasmina and Radošević, Slobodan and Pantić, Milan and Pavkov-Hrvojević, Milica",
year = "2020",
abstract = "We demonstrate, using the example of the dc+ac driven overdamped Frenkel-Kontorova model, that an easily calculable measure of complexity can be used for the examination of Shapiro steps in the presence of thermal noise. In real systems, thermal noise causes melting or even disappearance of Shapiro steps, which makes their analysis in the standard way from the response function difficult. Unlike in the conventional approach, here, by calculating the Kolmogorov complexity of certain areas in the response function, we were able to detect Shapiro steps, measure their size with the desired precision, and examine their temperature dependence. The aim of this work is to provide scientists, particularly experimentalists, with an unconventional, but practical and easy tool for examination of Shapiro steps in real systems.",
journal = "Physical Review E",
title = "Complexity of Shapiro steps",
volume = "101",
number = "3",
pages = "032203",
doi = "10.1103/PhysRevE.101.032203"
}

Mali, P., Šakota, A., Tekić, J., Radošević, S., Pantić, M.,& Pavkov-Hrvojević, M.. (2020). Complexity of Shapiro steps. in Physical Review E, 101(3), 032203.
https://doi.org/10.1103/PhysRevE.101.032203

Mali P, Šakota A, Tekić J, Radošević S, Pantić M, Pavkov-Hrvojević M. Complexity of Shapiro steps. in Physical Review E. 2020;101(3):032203.
doi:10.1103/PhysRevE.101.032203 .

Mali, Petar, Šakota, Anđela, Tekić, Jasmina, Radošević, Slobodan, Pantić, Milan, Pavkov-Hrvojević, Milica, "Complexity of Shapiro steps" in Physical Review E, 101, no. 3 (2020):032203,
https://doi.org/10.1103/PhysRevE.101.032203 . .

TY  - JOUR
AU  - Ivić, Zoran
AU  - Lazarides, Nikos
AU  - Tsironis, Giorgos P.
PY  - 2019
UR  - https://linkinghub.elsevier.com/retrieve/pii/S2590054419300028
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/8072
AB  - We introduce a quantum superconducting metamaterial design constituted of flux qubits that operate as artificial atoms and analyze the dynamics of an injected electromagnetic pulse in the system. Qubit-photon interaction affects dramatically the nonlinear photon pulse propagation. We find analytically that the well known atomic phenomenon of self induced transparency may occur in this metamaterial as well and may lead to significant control over the optical pulse propagating properties. Specifically, the pulse may be slowed down substantially or even be stopped. These pulse properties depend crucially on the inhomogeneous broadening of the levels of the artificial atoms. © 2019
T2  - Chaos, Solitons and Fractals: X
T1  - Self-induced transparency in a flux-qubit chain
VL  - 1
SP  - 100003
DO  - 10.1016/j.csfx.2019.100003
ER  - 

@article{
author = "Ivić, Zoran and Lazarides, Nikos and Tsironis, Giorgos P.",
year = "2019",
abstract = "We introduce a quantum superconducting metamaterial design constituted of flux qubits that operate as artificial atoms and analyze the dynamics of an injected electromagnetic pulse in the system. Qubit-photon interaction affects dramatically the nonlinear photon pulse propagation. We find analytically that the well known atomic phenomenon of self induced transparency may occur in this metamaterial as well and may lead to significant control over the optical pulse propagating properties. Specifically, the pulse may be slowed down substantially or even be stopped. These pulse properties depend crucially on the inhomogeneous broadening of the levels of the artificial atoms. © 2019",
journal = "Chaos, Solitons and Fractals: X",
title = "Self-induced transparency in a flux-qubit chain",
volume = "1",
pages = "100003",
doi = "10.1016/j.csfx.2019.100003"
}

Ivić, Z., Lazarides, N.,& Tsironis, G. P.. (2019). Self-induced transparency in a flux-qubit chain. in Chaos, Solitons and Fractals: X, 1, 100003.
https://doi.org/10.1016/j.csfx.2019.100003

Ivić Z, Lazarides N, Tsironis GP. Self-induced transparency in a flux-qubit chain. in Chaos, Solitons and Fractals: X. 2019;1:100003.
doi:10.1016/j.csfx.2019.100003 .

Ivić, Zoran, Lazarides, Nikos, Tsironis, Giorgos P., "Self-induced transparency in a flux-qubit chain" in Chaos, Solitons and Fractals: X, 1 (2019):100003,
https://doi.org/10.1016/j.csfx.2019.100003 . .

TY  - JOUR
AU  - Tekić, Jasmina
AU  - Botha, Andre E.
AU  - Mali, Petar
AU  - Shukrinov, Yury M.
PY  - 2019
UR  - https://link.aps.org/doi/10.1103/PhysRevE.99.022206
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/8058
AB  - The effects of inertial terms on the dynamics of the dc+ac driven Frenkel-Kontorova model were examined. As the mass of particles was varied, the response of the system to the driving forces and appearance of the Shapiro steps were analyzed in detail. Unlike in the overdamped case, the increase of mass led to the appearance of the whole series of subharmonic steps in the staircase of the average velocity as a function of average driving force in any commensurate structure. At certain values of parameters, the subharmonic steps became separated by chaotic windows while the whole structure retained scaling similar to the original staircase. The mass of the particles also determined their sensitivity to the forces governing their dynamics. Depending on their mass, they were found to exhibit three types of dynamics, from dynamical mode-locking with chaotic windows, through to a typical dc response, to essentially a free-particle response. Examination of this dynamics in both the upforce and downforce directions showed that the system may not only exhibit hysteresis, but also that large Shapiro steps may appear in the downforce direction, even in cases for which no dynamical mode-locking occurred in the upforce direction. © 2019 American Physical Society.
T2  - Physical Review E
T1  - Inertial effects in the dc+ac driven underdamped Frenkel-Kontorova model: Subharmonic steps, chaos, and hysteresis
VL  - 99
IS  - 2
SP  - 022206
DO  - 10.1103/PhysRevE.99.022206
ER  - 

@article{
author = "Tekić, Jasmina and Botha, Andre E. and Mali, Petar and Shukrinov, Yury M.",
year = "2019",
abstract = "The effects of inertial terms on the dynamics of the dc+ac driven Frenkel-Kontorova model were examined. As the mass of particles was varied, the response of the system to the driving forces and appearance of the Shapiro steps were analyzed in detail. Unlike in the overdamped case, the increase of mass led to the appearance of the whole series of subharmonic steps in the staircase of the average velocity as a function of average driving force in any commensurate structure. At certain values of parameters, the subharmonic steps became separated by chaotic windows while the whole structure retained scaling similar to the original staircase. The mass of the particles also determined their sensitivity to the forces governing their dynamics. Depending on their mass, they were found to exhibit three types of dynamics, from dynamical mode-locking with chaotic windows, through to a typical dc response, to essentially a free-particle response. Examination of this dynamics in both the upforce and downforce directions showed that the system may not only exhibit hysteresis, but also that large Shapiro steps may appear in the downforce direction, even in cases for which no dynamical mode-locking occurred in the upforce direction. © 2019 American Physical Society.",
journal = "Physical Review E",
title = "Inertial effects in the dc+ac driven underdamped Frenkel-Kontorova model: Subharmonic steps, chaos, and hysteresis",
volume = "99",
number = "2",
pages = "022206",
doi = "10.1103/PhysRevE.99.022206"
}

Tekić, J., Botha, A. E., Mali, P.,& Shukrinov, Y. M.. (2019). Inertial effects in the dc+ac driven underdamped Frenkel-Kontorova model: Subharmonic steps, chaos, and hysteresis. in Physical Review E, 99(2), 022206.
https://doi.org/10.1103/PhysRevE.99.022206

Tekić J, Botha AE, Mali P, Shukrinov YM. Inertial effects in the dc+ac driven underdamped Frenkel-Kontorova model: Subharmonic steps, chaos, and hysteresis. in Physical Review E. 2019;99(2):022206.
doi:10.1103/PhysRevE.99.022206 .

Tekić, Jasmina, Botha, Andre E., Mali, Petar, Shukrinov, Yury M., "Inertial effects in the dc+ac driven underdamped Frenkel-Kontorova model: Subharmonic steps, chaos, and hysteresis" in Physical Review E, 99, no. 2 (2019):022206,
https://doi.org/10.1103/PhysRevE.99.022206 . .

TY  - JOUR
AU  - Tuszynski, Jack A.
AU  - Satarić, Miljko V.
AU  - Sekulić, Dalibor L.
AU  - Satarić, Bogdan M.
AU  - Zdravković, Slobodan
PY  - 2018
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/8397
AB  - Calcium ions (Ca2+) tune and control numerous diverse aspects of cochlear and vestibular physiological processes. This paper is focused on the Ca2+ control of mechanotransduction in sensory hair cells in the context of polyelectrolyte properties of actin filaments within the hair–bundles of inner ear. These actin filaments appear to serve as efficient pathways for the flow of Ca2+ ions inside stereocilia. We showed how this can be utilized for tuning of force–generating myosin motors. In an established model, we unified the Ca2+ nonlinear dynamics involved in the control of myosin adaptation motors with mechanical displacements of hair–bundles. The model shows that the characteristic time scales fit reasonably well with the available experimental data for spontaneous oscillations in the inner ear. This scenario promises to fill a gap in our understanding of the role of Ca2+ ions in the regulation of processes in the auditory cells of the inner ear. © 2018 Elsevier B.V.
T2  - Biosystems
T1  - Nonlinear calcium ion waves along actin filaments control active hair–bundle motility
VL  - 173
SP  - 181
EP  - 190
DO  - 10.1016/j.biosystems.2018.08.006
ER  - 

@article{
author = "Tuszynski, Jack A. and Satarić, Miljko V. and Sekulić, Dalibor L. and Satarić, Bogdan M. and Zdravković, Slobodan",
year = "2018",
abstract = "Calcium ions (Ca2+) tune and control numerous diverse aspects of cochlear and vestibular physiological processes. This paper is focused on the Ca2+ control of mechanotransduction in sensory hair cells in the context of polyelectrolyte properties of actin filaments within the hair–bundles of inner ear. These actin filaments appear to serve as efficient pathways for the flow of Ca2+ ions inside stereocilia. We showed how this can be utilized for tuning of force–generating myosin motors. In an established model, we unified the Ca2+ nonlinear dynamics involved in the control of myosin adaptation motors with mechanical displacements of hair–bundles. The model shows that the characteristic time scales fit reasonably well with the available experimental data for spontaneous oscillations in the inner ear. This scenario promises to fill a gap in our understanding of the role of Ca2+ ions in the regulation of processes in the auditory cells of the inner ear. © 2018 Elsevier B.V.",
journal = "Biosystems",
title = "Nonlinear calcium ion waves along actin filaments control active hair–bundle motility",
volume = "173",
pages = "181-190",
doi = "10.1016/j.biosystems.2018.08.006"
}

Tuszynski, J. A., Satarić, M. V., Sekulić, D. L., Satarić, B. M.,& Zdravković, S.. (2018). Nonlinear calcium ion waves along actin filaments control active hair–bundle motility. in Biosystems, 173, 181-190.
https://doi.org/10.1016/j.biosystems.2018.08.006

Tuszynski JA, Satarić MV, Sekulić DL, Satarić BM, Zdravković S. Nonlinear calcium ion waves along actin filaments control active hair–bundle motility. in Biosystems. 2018;173:181-190.
doi:10.1016/j.biosystems.2018.08.006 .

Tuszynski, Jack A., Satarić, Miljko V., Sekulić, Dalibor L., Satarić, Bogdan M., Zdravković, Slobodan, "Nonlinear calcium ion waves along actin filaments control active hair–bundle motility" in Biosystems, 173 (2018):181-190,
https://doi.org/10.1016/j.biosystems.2018.08.006 . .

TY  - JOUR
AU  - Mandilara, Aikaterini
AU  - Ivić, Zoran
AU  - Čevizović, Dalibor
AU  - Pržulj, Željko
PY  - 2017
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/1846
AB  - We show that the self-induced transparency of optical phonons may appear in a systems consisting of a two level atoms interacting with elastic waves. The presence of the gap in phonon spectrum substantially enhances the pulse delay in respect to the acoustic self induced transparency phenomena. One of the main characteristics of the predicted phenomenon is the appearance of the critical velocity of the self-induced transparency pulse which, in the absorbing media, represents the upper limit which pulse may reach. Its magnitude is determined by the ratio of the phonon gap and the energy difference of the two level system. This feature opens a new way for the control of the speed of elastic waves. We believe that, in the view of the emerging new quantum technologies relying on creation and trapping of the coherent phonons interacting with artificial atoms, some practical implementations of interest for the storage and manipulation of quantum information may be realised on the basis of our work. (C) 2017 Elsevier Ltd. All rights reserved.
T2  - Chaos, Solitons and Fractals
T1  - Self-induced transparency of the optical phonons
VL  - 105
SP  - 14
EP  - 20
DO  - 10.1016/j.chaos.2017.10.002
ER  - 

@article{
author = "Mandilara, Aikaterini and Ivić, Zoran and Čevizović, Dalibor and Pržulj, Željko",
year = "2017",
abstract = "We show that the self-induced transparency of optical phonons may appear in a systems consisting of a two level atoms interacting with elastic waves. The presence of the gap in phonon spectrum substantially enhances the pulse delay in respect to the acoustic self induced transparency phenomena. One of the main characteristics of the predicted phenomenon is the appearance of the critical velocity of the self-induced transparency pulse which, in the absorbing media, represents the upper limit which pulse may reach. Its magnitude is determined by the ratio of the phonon gap and the energy difference of the two level system. This feature opens a new way for the control of the speed of elastic waves. We believe that, in the view of the emerging new quantum technologies relying on creation and trapping of the coherent phonons interacting with artificial atoms, some practical implementations of interest for the storage and manipulation of quantum information may be realised on the basis of our work. (C) 2017 Elsevier Ltd. All rights reserved.",
journal = "Chaos, Solitons and Fractals",
title = "Self-induced transparency of the optical phonons",
volume = "105",
pages = "14-20",
doi = "10.1016/j.chaos.2017.10.002"
}

Mandilara, A., Ivić, Z., Čevizović, D.,& Pržulj, Ž.. (2017). Self-induced transparency of the optical phonons. in Chaos, Solitons and Fractals, 105, 14-20.
https://doi.org/10.1016/j.chaos.2017.10.002

Mandilara A, Ivić Z, Čevizović D, Pržulj Ž. Self-induced transparency of the optical phonons. in Chaos, Solitons and Fractals. 2017;105:14-20.
doi:10.1016/j.chaos.2017.10.002 .

Mandilara, Aikaterini, Ivić, Zoran, Čevizović, Dalibor, Pržulj, Željko, "Self-induced transparency of the optical phonons" in Chaos, Solitons and Fractals, 105 (2017):14-20,
https://doi.org/10.1016/j.chaos.2017.10.002 . .

TY  - JOUR
AU  - Sokolović, I.
AU  - Mali, Petar
AU  - Odavić, Jovan
AU  - Radošević, Slobodan M.
AU  - Medvedeva, S. Yu.
AU  - Botha, Andre E.
AU  - Shukrinov, Yury M.
AU  - Tekić, Jasmina
PY  - 2017
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/1692
AB  - The devils staircase structure arising from the complete mode locking of an entirely nonchaotic system, the overdamped dc+ac driven Frenkel-Kontorova model with deformable substrate potential, was observed. Even though no chaos was found, a hierarchical ordering of the Shapiro steps was made possible through the use of a previously introduced continued fraction formula. The absence of chaos, deduced here from Lyapunov exponent analyses, can be attributed to the overdamped character and the Middleton no-passing rule. A comparative analysis of a one-dimensional stack of Josephson junctions confirmed the disappearance of chaos with increasing dissipation. Other common dynamic features were also identified through this comparison. A detailed analysis of the amplitude dependence of the Shapiro steps revealed that only for the case of a purely sinusoidal substrate potential did the relative sizes of the steps follow a Farey sequence. For nonsinusoidal (deformed) potentials, the symmetry of the Stern-Brocot tree, depicting all members of particular Farey sequence, was seen to be increasingly broken, with certain steps being more prominent and their relative sizes not following the Farey rule.
T2  - Physical Review E
T1  - Devils staircase and the absence of chaos in the dc- and ac-driven overdamped Frenkel-Kontorova model
VL  - 96
IS  - 2
DO  - 10.1103/PhysRevE.96.022210
ER  - 

@article{
author = "Sokolović, I. and Mali, Petar and Odavić, Jovan and Radošević, Slobodan M. and Medvedeva, S. Yu. and Botha, Andre E. and Shukrinov, Yury M. and Tekić, Jasmina",
year = "2017",
abstract = "The devils staircase structure arising from the complete mode locking of an entirely nonchaotic system, the overdamped dc+ac driven Frenkel-Kontorova model with deformable substrate potential, was observed. Even though no chaos was found, a hierarchical ordering of the Shapiro steps was made possible through the use of a previously introduced continued fraction formula. The absence of chaos, deduced here from Lyapunov exponent analyses, can be attributed to the overdamped character and the Middleton no-passing rule. A comparative analysis of a one-dimensional stack of Josephson junctions confirmed the disappearance of chaos with increasing dissipation. Other common dynamic features were also identified through this comparison. A detailed analysis of the amplitude dependence of the Shapiro steps revealed that only for the case of a purely sinusoidal substrate potential did the relative sizes of the steps follow a Farey sequence. For nonsinusoidal (deformed) potentials, the symmetry of the Stern-Brocot tree, depicting all members of particular Farey sequence, was seen to be increasingly broken, with certain steps being more prominent and their relative sizes not following the Farey rule.",
journal = "Physical Review E",
title = "Devils staircase and the absence of chaos in the dc- and ac-driven overdamped Frenkel-Kontorova model",
volume = "96",
number = "2",
doi = "10.1103/PhysRevE.96.022210"
}

Sokolović, I., Mali, P., Odavić, J., Radošević, S. M., Medvedeva, S. Yu., Botha, A. E., Shukrinov, Y. M.,& Tekić, J.. (2017). Devils staircase and the absence of chaos in the dc- and ac-driven overdamped Frenkel-Kontorova model. in Physical Review E, 96(2).
https://doi.org/10.1103/PhysRevE.96.022210

Sokolović I, Mali P, Odavić J, Radošević SM, Medvedeva SY, Botha AE, Shukrinov YM, Tekić J. Devils staircase and the absence of chaos in the dc- and ac-driven overdamped Frenkel-Kontorova model. in Physical Review E. 2017;96(2).
doi:10.1103/PhysRevE.96.022210 .

Sokolović, I., Mali, Petar, Odavić, Jovan, Radošević, Slobodan M., Medvedeva, S. Yu., Botha, Andre E., Shukrinov, Yury M., Tekić, Jasmina, "Devils staircase and the absence of chaos in the dc- and ac-driven overdamped Frenkel-Kontorova model" in Physical Review E, 96, no. 2 (2017),
https://doi.org/10.1103/PhysRevE.96.022210 . .

TY  - JOUR
AU  - Satarić, Miljko V.
AU  - Sekulić, Dalibor L.
AU  - Zdravković, Slobodan
AU  - Ralević, Nebojša M.
PY  - 2017
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/1560
AB  - It appears that so called post translational modifications of tubulin heterodimers are mostly focussed at positions of amino acid sequences of carboxy terminal tails. These changes have very profound effects on microtubule functions especially in connection with cellular traffic in terms of motor proteins. In this study, we elaborated the biophysical model aimed to explain the strategy governing these subtle interplays between structural and functional properties of microtubules. We relied onto Langevin equations including fluctuation dissipation processes. In that context we found out that small interaction between a charged motor neck domain and oppositely charged carboxy terminal tail of the a tubulin plays the decisive role in tuning kinesin-1 motor processivity along microtubules.
T2  - Journal of Theoretical Biology
T1  - A biophysical model of how alpha-tubulin carboxy-terminal tails tune kinesin-1 processivity along microtubule
VL  - 420
SP  - 152
EP  - 157
DO  - 10.1016/j.jtbi.2017.03.012
ER  - 

@article{
author = "Satarić, Miljko V. and Sekulić, Dalibor L. and Zdravković, Slobodan and Ralević, Nebojša M.",
year = "2017",
abstract = "It appears that so called post translational modifications of tubulin heterodimers are mostly focussed at positions of amino acid sequences of carboxy terminal tails. These changes have very profound effects on microtubule functions especially in connection with cellular traffic in terms of motor proteins. In this study, we elaborated the biophysical model aimed to explain the strategy governing these subtle interplays between structural and functional properties of microtubules. We relied onto Langevin equations including fluctuation dissipation processes. In that context we found out that small interaction between a charged motor neck domain and oppositely charged carboxy terminal tail of the a tubulin plays the decisive role in tuning kinesin-1 motor processivity along microtubules.",
journal = "Journal of Theoretical Biology",
title = "A biophysical model of how alpha-tubulin carboxy-terminal tails tune kinesin-1 processivity along microtubule",
volume = "420",
pages = "152-157",
doi = "10.1016/j.jtbi.2017.03.012"
}

Satarić, M. V., Sekulić, D. L., Zdravković, S.,& Ralević, N. M.. (2017). A biophysical model of how alpha-tubulin carboxy-terminal tails tune kinesin-1 processivity along microtubule. in Journal of Theoretical Biology, 420, 152-157.
https://doi.org/10.1016/j.jtbi.2017.03.012

Satarić MV, Sekulić DL, Zdravković S, Ralević NM. A biophysical model of how alpha-tubulin carboxy-terminal tails tune kinesin-1 processivity along microtubule. in Journal of Theoretical Biology. 2017;420:152-157.
doi:10.1016/j.jtbi.2017.03.012 .

Satarić, Miljko V., Sekulić, Dalibor L., Zdravković, Slobodan, Ralević, Nebojša M., "A biophysical model of how alpha-tubulin carboxy-terminal tails tune kinesin-1 processivity along microtubule" in Journal of Theoretical Biology, 420 (2017):152-157,
https://doi.org/10.1016/j.jtbi.2017.03.012 . .

TY  - JOUR
AU  - Odavic, Jovan
AU  - Mali, Petar
AU  - Tekić, Jasmina
AU  - Pantic, Milan
AU  - Pavkov-Hrvojević, Milica
PY  - 2017
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/1413
AB  - Dynamics of driven dissipative Frenkel-Kontorova model is examined by using largest Lyapunov exponent computational technique. Obtained results show that besides the usual way where behavior of the system in the presence of external forces is studied by analyzing its dynamical response function, the largest Lyapunov exponent analysis can represent a very convenient tool to examine system dynamics. In the dc driven systems, the critical depinning force for particular structure could be estimated by computing the largest Lyapunov exponent. In the dc+ac driven systems, if the substrate potential is the standard sinusoidal one, calculation of the largest Lyapunov exponent offers a more sensitive way to detect the presence of Shapiro steps. When the amplitude of the ac force is varied the behavior of the largest Lyapunov exponent in the pinned regime completely reflects the behavior of Shapiro steps and the critical depinning force, in particular, it represents the mirror image of the amplitude dependence of critical depinning force. This points out an advantage of this technique since by calculating the largest Lyapunov exponent in the pinned regime we can get an insight into the dynamics of the system when driving forces are applied. Additionally, the system is shown to be not chaotic even in the case of incommensurate structures and large amplitudes of external force, which is a consequence of overdampness of the model and the Middletons no passing rule. (C) 2016 Elsevier B.V. All rights reserved.
T2  - Communications in Nonlinear Science and Numerical Simulation
T1  - Application of largest Lyapunov exponent analysis on the studies of dynamics under external forces
VL  - 47
SP  - 100
EP  - 108
DO  - 10.1016/j.cnsns.2016.11.010
ER  - 

@article{
author = "Odavic, Jovan and Mali, Petar and Tekić, Jasmina and Pantic, Milan and Pavkov-Hrvojević, Milica",
year = "2017",
abstract = "Dynamics of driven dissipative Frenkel-Kontorova model is examined by using largest Lyapunov exponent computational technique. Obtained results show that besides the usual way where behavior of the system in the presence of external forces is studied by analyzing its dynamical response function, the largest Lyapunov exponent analysis can represent a very convenient tool to examine system dynamics. In the dc driven systems, the critical depinning force for particular structure could be estimated by computing the largest Lyapunov exponent. In the dc+ac driven systems, if the substrate potential is the standard sinusoidal one, calculation of the largest Lyapunov exponent offers a more sensitive way to detect the presence of Shapiro steps. When the amplitude of the ac force is varied the behavior of the largest Lyapunov exponent in the pinned regime completely reflects the behavior of Shapiro steps and the critical depinning force, in particular, it represents the mirror image of the amplitude dependence of critical depinning force. This points out an advantage of this technique since by calculating the largest Lyapunov exponent in the pinned regime we can get an insight into the dynamics of the system when driving forces are applied. Additionally, the system is shown to be not chaotic even in the case of incommensurate structures and large amplitudes of external force, which is a consequence of overdampness of the model and the Middletons no passing rule. (C) 2016 Elsevier B.V. All rights reserved.",
journal = "Communications in Nonlinear Science and Numerical Simulation",
title = "Application of largest Lyapunov exponent analysis on the studies of dynamics under external forces",
volume = "47",
pages = "100-108",
doi = "10.1016/j.cnsns.2016.11.010"
}

Odavic, J., Mali, P., Tekić, J., Pantic, M.,& Pavkov-Hrvojević, M.. (2017). Application of largest Lyapunov exponent analysis on the studies of dynamics under external forces. in Communications in Nonlinear Science and Numerical Simulation, 47, 100-108.
https://doi.org/10.1016/j.cnsns.2016.11.010

Odavic J, Mali P, Tekić J, Pantic M, Pavkov-Hrvojević M. Application of largest Lyapunov exponent analysis on the studies of dynamics under external forces. in Communications in Nonlinear Science and Numerical Simulation. 2017;47:100-108.
doi:10.1016/j.cnsns.2016.11.010 .

Odavic, Jovan, Mali, Petar, Tekić, Jasmina, Pantic, Milan, Pavkov-Hrvojević, Milica, "Application of largest Lyapunov exponent analysis on the studies of dynamics under external forces" in Communications in Nonlinear Science and Numerical Simulation, 47 (2017):100-108,
https://doi.org/10.1016/j.cnsns.2016.11.010 . .

TY  - JOUR
AU  - Čevizović, Dalibor
AU  - Ivić, Zoran
AU  - Toprek, Dragan
AU  - Pržulj, Željko
AU  - Kapor, Darko
PY  - 2016
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/1275
AB  - We consider the properties of the large acoustic polarons in a media composed of three parallel coupled identical macromolecular chains in an equilateral triangular arrangement. The existence of the truly three-dimensional large polarons has been demonstrated. Their appearance demands the complex interference of the effects of the reduced dimensionality, the nature and strength of the interchain coupling and particular geometrical arrangement of molecular chains. Different types of solutions were found and criteria for their existence were formulated in terms of the dimensionless interchain coupling parameter. (C) 2016 Elsevier Ltd. All rights reserved.
T2  - Chaos, Solitons and Fractals
T1  - Large acoustic polaron states and bifurcation in three coupled parallel molecular chains
VL  - 91
SP  - 63
EP  - 68
DO  - 10.1016/j.chaos.2016.05.001
ER  - 

@article{
author = "Čevizović, Dalibor and Ivić, Zoran and Toprek, Dragan and Pržulj, Željko and Kapor, Darko",
year = "2016",
abstract = "We consider the properties of the large acoustic polarons in a media composed of three parallel coupled identical macromolecular chains in an equilateral triangular arrangement. The existence of the truly three-dimensional large polarons has been demonstrated. Their appearance demands the complex interference of the effects of the reduced dimensionality, the nature and strength of the interchain coupling and particular geometrical arrangement of molecular chains. Different types of solutions were found and criteria for their existence were formulated in terms of the dimensionless interchain coupling parameter. (C) 2016 Elsevier Ltd. All rights reserved.",
journal = "Chaos, Solitons and Fractals",
title = "Large acoustic polaron states and bifurcation in three coupled parallel molecular chains",
volume = "91",
pages = "63-68",
doi = "10.1016/j.chaos.2016.05.001"
}

Čevizović, D., Ivić, Z., Toprek, D., Pržulj, Ž.,& Kapor, D.. (2016). Large acoustic polaron states and bifurcation in three coupled parallel molecular chains. in Chaos, Solitons and Fractals, 91, 63-68.
https://doi.org/10.1016/j.chaos.2016.05.001

Čevizović D, Ivić Z, Toprek D, Pržulj Ž, Kapor D. Large acoustic polaron states and bifurcation in three coupled parallel molecular chains. in Chaos, Solitons and Fractals. 2016;91:63-68.
doi:10.1016/j.chaos.2016.05.001 .

Čevizović, Dalibor, Ivić, Zoran, Toprek, Dragan, Pržulj, Željko, Kapor, Darko, "Large acoustic polaron states and bifurcation in three coupled parallel molecular chains" in Chaos, Solitons and Fractals, 91 (2016):63-68,
https://doi.org/10.1016/j.chaos.2016.05.001 . .

TY  - JOUR
AU  - Sekulić, Dalibor L.
AU  - Satarić, Bogdan M.
AU  - Zdravković, Slobodan
AU  - Bugay, Aleksandr N.
AU  - Satarić, Miljko V.
PY  - 2016
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/1225
AB  - The mechanical and electrical properties, and information processing capabilities of microtubules are the permanent subject of interest for carrying out experiments in vitro and in silico, as well as for theoretical attempts to elucidate the underlying processes. In this paper, we developed a new model of the mechano-electrical waves elicited in the rows of very flexible C-terminal tails which decorate the outer surface of each microtubule. The fact that C-terminal tails play very diverse roles in many cellular functions, such as recruitment of motor proteins and microtubule-associated proteins, motivated us to consider their collective dynamics as the source of localized waves aimed for communication between microtubule and associated proteins. Our approach is based on the ferroelectric liquid crystal model and it leads to the effective asymmetric double-well potential which brings about the conditions for the appearance of kink-waves conducted by intrinsic electric fields embedded in microtubules. These kinks can serve as the signals for control and regulation of intracellular traffic along microtubules performed by processive motions of motor proteins, primarly from kinesin and dynein families. On the other hand, they can be precursors for initiation of dynamical instability of microtubules by recruiting the proper proteins responsible for the depolymerization process. Published by AIP Publishing.
T2  - Chaos
T1  - Nonlinear dynamics of C-terminal tails in cellular microtubules
VL  - 26
IS  - 7
DO  - 10.1063/1.4959802
ER  - 

@article{
author = "Sekulić, Dalibor L. and Satarić, Bogdan M. and Zdravković, Slobodan and Bugay, Aleksandr N. and Satarić, Miljko V.",
year = "2016",
abstract = "The mechanical and electrical properties, and information processing capabilities of microtubules are the permanent subject of interest for carrying out experiments in vitro and in silico, as well as for theoretical attempts to elucidate the underlying processes. In this paper, we developed a new model of the mechano-electrical waves elicited in the rows of very flexible C-terminal tails which decorate the outer surface of each microtubule. The fact that C-terminal tails play very diverse roles in many cellular functions, such as recruitment of motor proteins and microtubule-associated proteins, motivated us to consider their collective dynamics as the source of localized waves aimed for communication between microtubule and associated proteins. Our approach is based on the ferroelectric liquid crystal model and it leads to the effective asymmetric double-well potential which brings about the conditions for the appearance of kink-waves conducted by intrinsic electric fields embedded in microtubules. These kinks can serve as the signals for control and regulation of intracellular traffic along microtubules performed by processive motions of motor proteins, primarly from kinesin and dynein families. On the other hand, they can be precursors for initiation of dynamical instability of microtubules by recruiting the proper proteins responsible for the depolymerization process. Published by AIP Publishing.",
journal = "Chaos",
title = "Nonlinear dynamics of C-terminal tails in cellular microtubules",
volume = "26",
number = "7",
doi = "10.1063/1.4959802"
}

Sekulić, D. L., Satarić, B. M., Zdravković, S., Bugay, A. N.,& Satarić, M. V.. (2016). Nonlinear dynamics of C-terminal tails in cellular microtubules. in Chaos, 26(7).
https://doi.org/10.1063/1.4959802

Sekulić DL, Satarić BM, Zdravković S, Bugay AN, Satarić MV. Nonlinear dynamics of C-terminal tails in cellular microtubules. in Chaos. 2016;26(7).
doi:10.1063/1.4959802 .

Sekulić, Dalibor L., Satarić, Bogdan M., Zdravković, Slobodan, Bugay, Aleksandr N., Satarić, Miljko V., "Nonlinear dynamics of C-terminal tails in cellular microtubules" in Chaos, 26, no. 7 (2016),
https://doi.org/10.1063/1.4959802 . .

TY  - JOUR
AU  - Čevizović, Dalibor
AU  - Ivić, Zoran
AU  - Galović, Slobodanka
AU  - Reshetnyak, Alexander A.
AU  - Chizhov, Alexei V.
PY  - 2016
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/990
AB  - We studied the properties of the intramolecular vibrational excitation (vibron) at finite temperature in a system which consists of two parallel macromolecular chains. It was assumed that vibron interacts exclusively with dispersionless optical phonons and the whole system is considered to be in thermal equilibrium. Particular attention has been paid to the examination of the impact of the temperature and strength of the interchain coupling on the small polaron crossover. For that purpose we employed partial dressing method which enables the study of the degree of the phonon dressing of the vibron excitations in a wide area of system parameter space. We found that in the non-adiabatic regime the degree of dressing as a function of coupling constant continuously increases reflecting the smooth transition of the slightly dressed, practically free vibron, to a heavily dressed one: small polaron. As adiabaticity rises this transition becomes increasingly steeper, and finally, in the adiabatic limit, a discontinuous jump of the degree of dressing is observed. The interchain coupling manifests itself through the increase of the effective adiabatic parameter of the system. (C) 2016 Elsevier B.V. All rights reserved.
PB  - Elsevier
T2  - Physica B: Condensed Matter
T1  - On the vibron nature in the system of two parallel macromolecular chains: The influence of interchain coupling
VL  - 490
SP  - 9
EP  - 15
DO  - 10.1016/j.physb.2016.02.033
ER  - 

@article{
author = "Čevizović, Dalibor and Ivić, Zoran and Galović, Slobodanka and Reshetnyak, Alexander A. and Chizhov, Alexei V.",
year = "2016",
abstract = "We studied the properties of the intramolecular vibrational excitation (vibron) at finite temperature in a system which consists of two parallel macromolecular chains. It was assumed that vibron interacts exclusively with dispersionless optical phonons and the whole system is considered to be in thermal equilibrium. Particular attention has been paid to the examination of the impact of the temperature and strength of the interchain coupling on the small polaron crossover. For that purpose we employed partial dressing method which enables the study of the degree of the phonon dressing of the vibron excitations in a wide area of system parameter space. We found that in the non-adiabatic regime the degree of dressing as a function of coupling constant continuously increases reflecting the smooth transition of the slightly dressed, practically free vibron, to a heavily dressed one: small polaron. As adiabaticity rises this transition becomes increasingly steeper, and finally, in the adiabatic limit, a discontinuous jump of the degree of dressing is observed. The interchain coupling manifests itself through the increase of the effective adiabatic parameter of the system. (C) 2016 Elsevier B.V. All rights reserved.",
publisher = "Elsevier",
journal = "Physica B: Condensed Matter",
title = "On the vibron nature in the system of two parallel macromolecular chains: The influence of interchain coupling",
volume = "490",
pages = "9-15",
doi = "10.1016/j.physb.2016.02.033"
}

Čevizović, D., Ivić, Z., Galović, S., Reshetnyak, A. A.,& Chizhov, A. V.. (2016). On the vibron nature in the system of two parallel macromolecular chains: The influence of interchain coupling. in Physica B: Condensed Matter
Elsevier., 490, 9-15.
https://doi.org/10.1016/j.physb.2016.02.033

Čevizović D, Ivić Z, Galović S, Reshetnyak AA, Chizhov AV. On the vibron nature in the system of two parallel macromolecular chains: The influence of interchain coupling. in Physica B: Condensed Matter. 2016;490:9-15.
doi:10.1016/j.physb.2016.02.033 .

Čevizović, Dalibor, Ivić, Zoran, Galović, Slobodanka, Reshetnyak, Alexander A., Chizhov, Alexei V., "On the vibron nature in the system of two parallel macromolecular chains: The influence of interchain coupling" in Physica B: Condensed Matter, 490 (2016):9-15,
https://doi.org/10.1016/j.physb.2016.02.033 . .

TY  - JOUR
AU  - Zdravković, Slobodan
AU  - Zeković, Slobodan
AU  - Bugay, Aleksandr N.
AU  - Satarić, Miljko V.
PY  - 2016
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/1056
AB  - We here study nonlinear dynamics of microtubule (MT). A so-called u - model is explained in detail. A single longitudinal degree of freedom per MT subunits is assumed. It is known that a continuum approximation of a basic discrete dynamical equation of motion enables existence of kink and antikink solitons along MT. In this paper we use semi- discrete approximation for this equation and show that modulated solitonic waves could propagate as well. We suggest possible biological implications of these waves. Also, a detailed parameter analysis is performed. (C) 2016 Elsevier Inc. All rights reserved.
T2  - Applied Mathematics and Computation
T1  - Localized modulated waves and longitudinal model of microtubules
VL  - 285
SP  - 248
EP  - 259
DO  - 10.1016/j.amc.2016.03.019
ER  - 

@article{
author = "Zdravković, Slobodan and Zeković, Slobodan and Bugay, Aleksandr N. and Satarić, Miljko V.",
year = "2016",
abstract = "We here study nonlinear dynamics of microtubule (MT). A so-called u - model is explained in detail. A single longitudinal degree of freedom per MT subunits is assumed. It is known that a continuum approximation of a basic discrete dynamical equation of motion enables existence of kink and antikink solitons along MT. In this paper we use semi- discrete approximation for this equation and show that modulated solitonic waves could propagate as well. We suggest possible biological implications of these waves. Also, a detailed parameter analysis is performed. (C) 2016 Elsevier Inc. All rights reserved.",
journal = "Applied Mathematics and Computation",
title = "Localized modulated waves and longitudinal model of microtubules",
volume = "285",
pages = "248-259",
doi = "10.1016/j.amc.2016.03.019"
}

Zdravković, S., Zeković, S., Bugay, A. N.,& Satarić, M. V.. (2016). Localized modulated waves and longitudinal model of microtubules. in Applied Mathematics and Computation, 285, 248-259.
https://doi.org/10.1016/j.amc.2016.03.019

Zdravković S, Zeković S, Bugay AN, Satarić MV. Localized modulated waves and longitudinal model of microtubules. in Applied Mathematics and Computation. 2016;285:248-259.
doi:10.1016/j.amc.2016.03.019 .

Zdravković, Slobodan, Zeković, Slobodan, Bugay, Aleksandr N., Satarić, Miljko V., "Localized modulated waves and longitudinal model of microtubules" in Applied Mathematics and Computation, 285 (2016):248-259,
https://doi.org/10.1016/j.amc.2016.03.019 . .

TY  - JOUR
AU  - Ivić, Zoran
AU  - Lazarides, Nikos
AU  - Tsironis, Giorgos P.
PY  - 2016
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/1167
AB  - Quantum bits (qubits) are at the heart of quantum information processing schemes. Currently, solid-state qubits, and in particular the superconducting ones, seem to satisfy the requirements for being the building blocks of viable quantum computers, since they exhibit relatively long coherence times, extremely low dissipation, and scalability. The possibility of achieving quantum coherence in macroscopic circuits comprising Josephson junctions, envisioned by Legett in the 1980s, was demonstrated for the first time in a charge qubit; since then, the exploitation of macroscopic quantum effects in low-capacitance Josephson junction circuits allowed for the realization of several kinds of superconducting qubits. Furthermore, coupling between qubits has been successfully achieved that was followed by the construction of multiple-qubit logic gates and the implementation of several algorithms. Here it is demonstrated that induced qubit lattice coherence as well as two remarkable quantum coherent optical phenomena, i.e., self-induced transparency and Dicke-type superradiance, may occur during light-pulse propagation in quantum metamaterials comprising superconducting charge qubits. The generated qubit lattice pulse forms a compound quantum breather that propagates in synchrony with the electromagnetic pulse. The experimental confirmation of such effects in superconducting quantum metamaterials may open a new pathway to potentially powerful quantum computing.
T2  - Scientific Reports
T1  - Qubit lattice coherence induced by electromagnetic pulses in superconducting metamaterials
VL  - 6
DO  - 10.1038/srep29374
ER  - 

@article{
author = "Ivić, Zoran and Lazarides, Nikos and Tsironis, Giorgos P.",
year = "2016",
abstract = "Quantum bits (qubits) are at the heart of quantum information processing schemes. Currently, solid-state qubits, and in particular the superconducting ones, seem to satisfy the requirements for being the building blocks of viable quantum computers, since they exhibit relatively long coherence times, extremely low dissipation, and scalability. The possibility of achieving quantum coherence in macroscopic circuits comprising Josephson junctions, envisioned by Legett in the 1980s, was demonstrated for the first time in a charge qubit; since then, the exploitation of macroscopic quantum effects in low-capacitance Josephson junction circuits allowed for the realization of several kinds of superconducting qubits. Furthermore, coupling between qubits has been successfully achieved that was followed by the construction of multiple-qubit logic gates and the implementation of several algorithms. Here it is demonstrated that induced qubit lattice coherence as well as two remarkable quantum coherent optical phenomena, i.e., self-induced transparency and Dicke-type superradiance, may occur during light-pulse propagation in quantum metamaterials comprising superconducting charge qubits. The generated qubit lattice pulse forms a compound quantum breather that propagates in synchrony with the electromagnetic pulse. The experimental confirmation of such effects in superconducting quantum metamaterials may open a new pathway to potentially powerful quantum computing.",
journal = "Scientific Reports",
title = "Qubit lattice coherence induced by electromagnetic pulses in superconducting metamaterials",
volume = "6",
doi = "10.1038/srep29374"
}

Ivić, Z., Lazarides, N.,& Tsironis, G. P.. (2016). Qubit lattice coherence induced by electromagnetic pulses in superconducting metamaterials. in Scientific Reports, 6.
https://doi.org/10.1038/srep29374

Ivić Z, Lazarides N, Tsironis GP. Qubit lattice coherence induced by electromagnetic pulses in superconducting metamaterials. in Scientific Reports. 2016;6.
doi:10.1038/srep29374 .

Ivić, Zoran, Lazarides, Nikos, Tsironis, Giorgos P., "Qubit lattice coherence induced by electromagnetic pulses in superconducting metamaterials" in Scientific Reports, 6 (2016),
https://doi.org/10.1038/srep29374 . .

TY  - JOUR
AU  - Satarić, Miljko V.
AU  - Sekulić, Dalibor L.
AU  - Satarić, Bogdan M.
AU  - Zdravković, Slobodan
PY  - 2015
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/782
AB  - This paper aims to provide an overview of the polyelectrolyte model and the current understanding of the creation and propagation of localized pulses of positive ions flowing along cellular microtubules. In that context, Ca2+ ions may move freely on the surface of microtubule along the protofilament axis, thus leading to signal transport. Special emphasis in this paper is placed on the possible role of this mechanism in the function of microtubule based kinocilium, a component of vestibular hair cells of the inner ear. We discuss how localized pulses of Ca2+ ions play a crucial role in tuning the activity of dynein motors, which are involved in mechano sensitivity of the kinocilium. A prevailing notion holds that the concentration of Ca2+ ions around the microtubules within the kinocilium represents the control parameter for Hopf bifurcation. Therefore, a key feature of this mechanism is that the velocities of these Ca2+ pulses be sufficiently high to exert control at acoustic frequencies. (C) 2015 Elsevier Ltd. All rights reserved.
T2  - Progress in Biophysics and Molecular Biology
T1  - Role of nonlinear localized Ca2+ pulses along microtubules in tuning the mechano-sensitivity of hair cells
VL  - 119
IS  - 2
SP  - 162
EP  - 174
DO  - 10.1016/j.pbiomolbio.2015.07.009
ER  - 

@article{
author = "Satarić, Miljko V. and Sekulić, Dalibor L. and Satarić, Bogdan M. and Zdravković, Slobodan",
year = "2015",
abstract = "This paper aims to provide an overview of the polyelectrolyte model and the current understanding of the creation and propagation of localized pulses of positive ions flowing along cellular microtubules. In that context, Ca2+ ions may move freely on the surface of microtubule along the protofilament axis, thus leading to signal transport. Special emphasis in this paper is placed on the possible role of this mechanism in the function of microtubule based kinocilium, a component of vestibular hair cells of the inner ear. We discuss how localized pulses of Ca2+ ions play a crucial role in tuning the activity of dynein motors, which are involved in mechano sensitivity of the kinocilium. A prevailing notion holds that the concentration of Ca2+ ions around the microtubules within the kinocilium represents the control parameter for Hopf bifurcation. Therefore, a key feature of this mechanism is that the velocities of these Ca2+ pulses be sufficiently high to exert control at acoustic frequencies. (C) 2015 Elsevier Ltd. All rights reserved.",
journal = "Progress in Biophysics and Molecular Biology",
title = "Role of nonlinear localized Ca2+ pulses along microtubules in tuning the mechano-sensitivity of hair cells",
volume = "119",
number = "2",
pages = "162-174",
doi = "10.1016/j.pbiomolbio.2015.07.009"
}

Satarić, M. V., Sekulić, D. L., Satarić, B. M.,& Zdravković, S.. (2015). Role of nonlinear localized Ca2+ pulses along microtubules in tuning the mechano-sensitivity of hair cells. in Progress in Biophysics and Molecular Biology, 119(2), 162-174.
https://doi.org/10.1016/j.pbiomolbio.2015.07.009

Satarić MV, Sekulić DL, Satarić BM, Zdravković S. Role of nonlinear localized Ca2+ pulses along microtubules in tuning the mechano-sensitivity of hair cells. in Progress in Biophysics and Molecular Biology. 2015;119(2):162-174.
doi:10.1016/j.pbiomolbio.2015.07.009 .

Satarić, Miljko V., Sekulić, Dalibor L., Satarić, Bogdan M., Zdravković, Slobodan, "Role of nonlinear localized Ca2+ pulses along microtubules in tuning the mechano-sensitivity of hair cells" in Progress in Biophysics and Molecular Biology, 119, no. 2 (2015):162-174,
https://doi.org/10.1016/j.pbiomolbio.2015.07.009 . .

TY  - JOUR
AU  - Čevizović, Dalibor
AU  - Ivić, Zoran
AU  - Toprek, Dragan
AU  - Kapor, Darko
AU  - Pržulj, Željko
PY  - 2015
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/478
AB  - We study the properties of the single large adiabatic polaron in the substances composed of three parallel equally separated coplanar molecular chains. Particular attention has been devoted to the influence of the interchain coupling strength on polaron stability in order to elucidate the origin of the large polaron existence, which, contrary to the predictions of continuum adiabatic theories may persist in realistic conditions. Our results indicate the existence of the effectively two-dimensional stationary polarons with comparably large longitudinal radius while the transverse one ranges from zero, in the absence of interchain coupling, to approximately twice of the interchain separation when coupling strength tends towards the infinity. These two-dimensional polarons are both energetically and dynamically stable. This is quite the opposite to the expectations based on the traditional adiabatic large polaron theories which, in the case of short ranged electron phonon interaction, predict that the stable large polaron may exist only in 1D systems. Stability of these 2D polarons increases with the increase of the interchain coupling strength so that they may be comparably more stable than the pure 1D polarons. (C) 2015 Elsevier Ltd. All rights reserved.
T2  - Chaos, Solitons and Fractals
T1  - The influence of the interchain coupling on large acoustic polarons in coupled molecular chains: Three coplanar parallel molecular chains
VL  - 73
SP  - 71
EP  - 79
DO  - 10.1016/j.chaos.2015.01.002
ER  - 

@article{
author = "Čevizović, Dalibor and Ivić, Zoran and Toprek, Dragan and Kapor, Darko and Pržulj, Željko",
year = "2015",
abstract = "We study the properties of the single large adiabatic polaron in the substances composed of three parallel equally separated coplanar molecular chains. Particular attention has been devoted to the influence of the interchain coupling strength on polaron stability in order to elucidate the origin of the large polaron existence, which, contrary to the predictions of continuum adiabatic theories may persist in realistic conditions. Our results indicate the existence of the effectively two-dimensional stationary polarons with comparably large longitudinal radius while the transverse one ranges from zero, in the absence of interchain coupling, to approximately twice of the interchain separation when coupling strength tends towards the infinity. These two-dimensional polarons are both energetically and dynamically stable. This is quite the opposite to the expectations based on the traditional adiabatic large polaron theories which, in the case of short ranged electron phonon interaction, predict that the stable large polaron may exist only in 1D systems. Stability of these 2D polarons increases with the increase of the interchain coupling strength so that they may be comparably more stable than the pure 1D polarons. (C) 2015 Elsevier Ltd. All rights reserved.",
journal = "Chaos, Solitons and Fractals",
title = "The influence of the interchain coupling on large acoustic polarons in coupled molecular chains: Three coplanar parallel molecular chains",
volume = "73",
pages = "71-79",
doi = "10.1016/j.chaos.2015.01.002"
}

Čevizović, D., Ivić, Z., Toprek, D., Kapor, D.,& Pržulj, Ž.. (2015). The influence of the interchain coupling on large acoustic polarons in coupled molecular chains: Three coplanar parallel molecular chains. in Chaos, Solitons and Fractals, 73, 71-79.
https://doi.org/10.1016/j.chaos.2015.01.002

Čevizović D, Ivić Z, Toprek D, Kapor D, Pržulj Ž. The influence of the interchain coupling on large acoustic polarons in coupled molecular chains: Three coplanar parallel molecular chains. in Chaos, Solitons and Fractals. 2015;73:71-79.
doi:10.1016/j.chaos.2015.01.002 .

Čevizović, Dalibor, Ivić, Zoran, Toprek, Dragan, Kapor, Darko, Pržulj, Željko, "The influence of the interchain coupling on large acoustic polarons in coupled molecular chains: Three coplanar parallel molecular chains" in Chaos, Solitons and Fractals, 73 (2015):71-79,
https://doi.org/10.1016/j.chaos.2015.01.002 . .

TY  - JOUR
AU  - Odavic, Jovan
AU  - Mali, Petar
AU  - Tekić, Jasmina
PY  - 2015
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/531
AB  - The largest Lyapunov exponent has been examined in the dynamical-mode locking phenomena of the ac+dc driven dissipative Frenkel-Kontorova model with deformable substrate potential. Due to deformation, large fractional and higher order subharmonic steps appear in the response function of the system. Computation of the largest Lyapunov exponent as a way to verify their presence led to the observation of the Farey sequence. In the standard regime, the appearance of half-integer and other subharmonic steps between the large harmonic steps, and their relative sizes follow the Farey construction. In the nonstandard regime, however, the half-integer steps are larger than harmonic ones, and Farey construction is only present in the appearance of higher order subharmonic steps. The examination of Lyapunov exponents has also shown that regardless of the substrate potential or deformation, there was no chaos in the system.
T2  - Physical Review E
T1  - Farey sequence in the appearance of subharmonic Shapiro steps
VL  - 91
IS  - 5
DO  - 10.1103/PhysRevE.91.052904
ER  - 

@article{
author = "Odavic, Jovan and Mali, Petar and Tekić, Jasmina",
year = "2015",
abstract = "The largest Lyapunov exponent has been examined in the dynamical-mode locking phenomena of the ac+dc driven dissipative Frenkel-Kontorova model with deformable substrate potential. Due to deformation, large fractional and higher order subharmonic steps appear in the response function of the system. Computation of the largest Lyapunov exponent as a way to verify their presence led to the observation of the Farey sequence. In the standard regime, the appearance of half-integer and other subharmonic steps between the large harmonic steps, and their relative sizes follow the Farey construction. In the nonstandard regime, however, the half-integer steps are larger than harmonic ones, and Farey construction is only present in the appearance of higher order subharmonic steps. The examination of Lyapunov exponents has also shown that regardless of the substrate potential or deformation, there was no chaos in the system.",
journal = "Physical Review E",
title = "Farey sequence in the appearance of subharmonic Shapiro steps",
volume = "91",
number = "5",
doi = "10.1103/PhysRevE.91.052904"
}

Odavic, J., Mali, P.,& Tekić, J.. (2015). Farey sequence in the appearance of subharmonic Shapiro steps. in Physical Review E, 91(5).
https://doi.org/10.1103/PhysRevE.91.052904

Odavic J, Mali P, Tekić J. Farey sequence in the appearance of subharmonic Shapiro steps. in Physical Review E. 2015;91(5).
doi:10.1103/PhysRevE.91.052904 .

Odavic, Jovan, Mali, Petar, Tekić, Jasmina, "Farey sequence in the appearance of subharmonic Shapiro steps" in Physical Review E, 91, no. 5 (2015),
https://doi.org/10.1103/PhysRevE.91.052904 . .

TY  - JOUR
AU  - Zdravković, Slobodan
AU  - Maluckov, Aleksandra
AU  - Dekić, Mirjana
AU  - Kuzmanović, Slavica
AU  - Satarić, Miljko V.
PY  - 2014
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/68
AB  - In this paper we study nonlinear dynamics of microtubules (MTs) relying on so-called u-model. A crucial discrete differential equation is transformed into a partial differential equation using a continuum approximation. Both the continuum and the discrete equations are solved and an excellent agreement of the results shows that MTs can be viewed as continuum systems. Thus we proved that the continuum approximation is applicable in research of nonlinear dynamics of MTs. (C) 2014 Elsevier Inc. All rights reserved.
T2  - Applied Mathematics and Computation
T1  - Are microtubules discrete or continuum systems?
VL  - 242
SP  - 353
EP  - 360
DO  - 10.1016/j.amc.2014.05.068
ER  - 

@article{
author = "Zdravković, Slobodan and Maluckov, Aleksandra and Dekić, Mirjana and Kuzmanović, Slavica and Satarić, Miljko V.",
year = "2014",
abstract = "In this paper we study nonlinear dynamics of microtubules (MTs) relying on so-called u-model. A crucial discrete differential equation is transformed into a partial differential equation using a continuum approximation. Both the continuum and the discrete equations are solved and an excellent agreement of the results shows that MTs can be viewed as continuum systems. Thus we proved that the continuum approximation is applicable in research of nonlinear dynamics of MTs. (C) 2014 Elsevier Inc. All rights reserved.",
journal = "Applied Mathematics and Computation",
title = "Are microtubules discrete or continuum systems?",
volume = "242",
pages = "353-360",
doi = "10.1016/j.amc.2014.05.068"
}

Zdravković, S., Maluckov, A., Dekić, M., Kuzmanović, S.,& Satarić, M. V.. (2014). Are microtubules discrete or continuum systems?. in Applied Mathematics and Computation, 242, 353-360.
https://doi.org/10.1016/j.amc.2014.05.068

Zdravković S, Maluckov A, Dekić M, Kuzmanović S, Satarić MV. Are microtubules discrete or continuum systems?. in Applied Mathematics and Computation. 2014;242:353-360.
doi:10.1016/j.amc.2014.05.068 .

Zdravković, Slobodan, Maluckov, Aleksandra, Dekić, Mirjana, Kuzmanović, Slavica, Satarić, Miljko V., "Are microtubules discrete or continuum systems?" in Applied Mathematics and Computation, 242 (2014):353-360,
https://doi.org/10.1016/j.amc.2014.05.068 . .

TY  - JOUR
AU  - Zdravković, Slobodan
AU  - Satarić, Miljko V.
AU  - Maluckov, Aleksandra
AU  - Balaz, A.
PY  - 2014
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/5998
AB  - We have established a new dynamical model of microtubules based on their intrinsic dipolar character. The model assumes a single angular degree of freedom per dimer describing the conformational displacements of constituent dimers in radial direction. A corresponding nonlinear dynamical equation of motion is solved both analytically, using the simplest equation method, and numerically. It is shown by both approaches that kink solitons could be elicited and sustained to propagate along the microtubule. We suggest that this model could explain some dynamical functional properties of microtubules, including the triggering of the onset of their depolymerization. (C) 2014 Elsevier Inc. All rights reserved.
T2  - Applied Mathematics and Computation
T1  - A nonlinear model of the dynamics of radial dislocations in microtubules
VL  - 237
SP  - 227
EP  - 237
DO  - 10.1016/j.amc.2014.03.113
ER  - 

@article{
author = "Zdravković, Slobodan and Satarić, Miljko V. and Maluckov, Aleksandra and Balaz, A.",
year = "2014",
abstract = "We have established a new dynamical model of microtubules based on their intrinsic dipolar character. The model assumes a single angular degree of freedom per dimer describing the conformational displacements of constituent dimers in radial direction. A corresponding nonlinear dynamical equation of motion is solved both analytically, using the simplest equation method, and numerically. It is shown by both approaches that kink solitons could be elicited and sustained to propagate along the microtubule. We suggest that this model could explain some dynamical functional properties of microtubules, including the triggering of the onset of their depolymerization. (C) 2014 Elsevier Inc. All rights reserved.",
journal = "Applied Mathematics and Computation",
title = "A nonlinear model of the dynamics of radial dislocations in microtubules",
volume = "237",
pages = "227-237",
doi = "10.1016/j.amc.2014.03.113"
}

Zdravković, S., Satarić, M. V., Maluckov, A.,& Balaz, A.. (2014). A nonlinear model of the dynamics of radial dislocations in microtubules. in Applied Mathematics and Computation, 237, 227-237.
https://doi.org/10.1016/j.amc.2014.03.113

Zdravković S, Satarić MV, Maluckov A, Balaz A. A nonlinear model of the dynamics of radial dislocations in microtubules. in Applied Mathematics and Computation. 2014;237:227-237.
doi:10.1016/j.amc.2014.03.113 .

Zdravković, Slobodan, Satarić, Miljko V., Maluckov, Aleksandra, Balaz, A., "A nonlinear model of the dynamics of radial dislocations in microtubules" in Applied Mathematics and Computation, 237 (2014):227-237,
https://doi.org/10.1016/j.amc.2014.03.113 . .

TY  - JOUR
AU  - Mali, Petar
AU  - Tekić, Jasmina
AU  - Pantic, Milan
PY  - 2014
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/6002
AB  - Properties of the Shapiro steps in different commensurate structures of the ac + dc driven Frenkel-Kontorova model with asymmetric deformable substrate potential have been examined. Deviation from the sinusoidal potential produces appearance of large subharmonic steps. In general, different commensurate structures respond differently to the applied force and have different velocities. The results have shown that after shape parameter gets some critical value, there is no difference in the behavior of Shapiro steps for different commensurate structures. The step size and the critical depinning force for different commensurate structures saturate to the same values, due to reduction of degrees of freedom with the large deformation of potential. (C) 2014 Elsevier B.V. All rights reserved.
T2  - Communications in Nonlinear Science and Numerical Simulation
T1  - Saturation effects in ac plus dc driven Frenkel-Kontorova model
VL  - 19
IS  - 10
SP  - 3469
EP  - 3475
DO  - 10.1016/j.cnsns.2014.03.017
ER  - 

@article{
author = "Mali, Petar and Tekić, Jasmina and Pantic, Milan",
year = "2014",
abstract = "Properties of the Shapiro steps in different commensurate structures of the ac + dc driven Frenkel-Kontorova model with asymmetric deformable substrate potential have been examined. Deviation from the sinusoidal potential produces appearance of large subharmonic steps. In general, different commensurate structures respond differently to the applied force and have different velocities. The results have shown that after shape parameter gets some critical value, there is no difference in the behavior of Shapiro steps for different commensurate structures. The step size and the critical depinning force for different commensurate structures saturate to the same values, due to reduction of degrees of freedom with the large deformation of potential. (C) 2014 Elsevier B.V. All rights reserved.",
journal = "Communications in Nonlinear Science and Numerical Simulation",
title = "Saturation effects in ac plus dc driven Frenkel-Kontorova model",
volume = "19",
number = "10",
pages = "3469-3475",
doi = "10.1016/j.cnsns.2014.03.017"
}

Mali, P., Tekić, J.,& Pantic, M.. (2014). Saturation effects in ac plus dc driven Frenkel-Kontorova model. in Communications in Nonlinear Science and Numerical Simulation, 19(10), 3469-3475.
https://doi.org/10.1016/j.cnsns.2014.03.017

Mali P, Tekić J, Pantic M. Saturation effects in ac plus dc driven Frenkel-Kontorova model. in Communications in Nonlinear Science and Numerical Simulation. 2014;19(10):3469-3475.
doi:10.1016/j.cnsns.2014.03.017 .

Mali, Petar, Tekić, Jasmina, Pantic, Milan, "Saturation effects in ac plus dc driven Frenkel-Kontorova model" in Communications in Nonlinear Science and Numerical Simulation, 19, no. 10 (2014):3469-3475,
https://doi.org/10.1016/j.cnsns.2014.03.017 . .