TY  - JOUR
AU  - Zhang, Lei
AU  - Xie, Xiulan
AU  - Đoković, Nemanja
AU  - Nikolić, Katarina
AU  - Kosenkov, Dmitri
AU  - Abendroth, Frank
AU  - Vázquez, Olalla
PY  - 2023
UR  - https://farfar.pharmacy.bg.ac.rs/handle/123456789/4913
AB  - Dynamics are intrinsic to both RNA function and
structure. Yet, the available means to precisely provide RNA-based
processes with spatiotemporal resolution are scarce. Here, our
work pioneers a reversible approach to regulate RNA splicing
within primary patient-derived cells by synthetic photoswitches.
Our small molecule enables conditional real-time control at mRNA
and protein levels. NMR experiments, together with theoretical
calculations, photochemical characterization, fluorescence polarization
measurements, and living cell-based assays, confirmed lightdependent
exon inclusion as well as an increase in the target
functional protein. Therefore, we first demonstrated the potential
of photopharmacology modulation in splicing, tweaking the
current optochemical toolkit. The timeliness on the consolidation
of RNA research as the driving force toward therapeutical innovation holds the promise that our approach will contribute to
redrawing the vision of RNA.
PB  - American Chemical Society
T2  - Journal of the American Chemical Society
T1  - Reversible Control of RNA Splicing by Photoswitchable Small Molecules
VL  - 145
IS  - 23
SP  - 12783
EP  - 12792
DO  - 10.1021/jacs.3c03275
ER  - 

@article{
author = "Zhang, Lei and Xie, Xiulan and Đoković, Nemanja and Nikolić, Katarina and Kosenkov, Dmitri and Abendroth, Frank and Vázquez, Olalla",
year = "2023",
abstract = "Dynamics are intrinsic to both RNA function and
structure. Yet, the available means to precisely provide RNA-based
processes with spatiotemporal resolution are scarce. Here, our
work pioneers a reversible approach to regulate RNA splicing
within primary patient-derived cells by synthetic photoswitches.
Our small molecule enables conditional real-time control at mRNA
and protein levels. NMR experiments, together with theoretical
calculations, photochemical characterization, fluorescence polarization
measurements, and living cell-based assays, confirmed lightdependent
exon inclusion as well as an increase in the target
functional protein. Therefore, we first demonstrated the potential
of photopharmacology modulation in splicing, tweaking the
current optochemical toolkit. The timeliness on the consolidation
of RNA research as the driving force toward therapeutical innovation holds the promise that our approach will contribute to
redrawing the vision of RNA.",
publisher = "American Chemical Society",
journal = "Journal of the American Chemical Society",
title = "Reversible Control of RNA Splicing by Photoswitchable Small Molecules",
volume = "145",
number = "23",
pages = "12783-12792",
doi = "10.1021/jacs.3c03275"
}

Zhang, L., Xie, X., Đoković, N., Nikolić, K., Kosenkov, D., Abendroth, F.,& Vázquez, O.. (2023). Reversible Control of RNA Splicing by Photoswitchable Small Molecules. in Journal of the American Chemical Society
American Chemical Society., 145(23), 12783-12792.
https://doi.org/10.1021/jacs.3c03275

Zhang L, Xie X, Đoković N, Nikolić K, Kosenkov D, Abendroth F, Vázquez O. Reversible Control of RNA Splicing by Photoswitchable Small Molecules. in Journal of the American Chemical Society. 2023;145(23):12783-12792.
doi:10.1021/jacs.3c03275 .

Zhang, Lei, Xie, Xiulan, Đoković, Nemanja, Nikolić, Katarina, Kosenkov, Dmitri, Abendroth, Frank, Vázquez, Olalla, "Reversible Control of RNA Splicing by Photoswitchable Small Molecules" in Journal of the American Chemical Society, 145, no. 23 (2023):12783-12792,
https://doi.org/10.1021/jacs.3c03275 . .

TY  - JOUR
AU  - Đoković, Nemanja
AU  - Ružić, Dušan
AU  - Rahnasto-Rilla, Mina
AU  - Srdić-Rajić, Tatjana
AU  - Lahtela-Kakkonen, Maija
AU  - Nikolić, Katarina
PY  - 2022
UR  - https://farfar.pharmacy.bg.ac.rs/handle/123456789/4102
AB  - Considerations of binding pocket dynamics are one of the crucial aspects of the rational design of binders. Identification of alternative conformational states or cryptic subpockets could lead to the discovery of completely novel groups of the ligands. However, experimental characterization of pocket dynamics, besides being expensive, may not be able to elucidate all of the conformational states relevant for drug discovery projects. In this study, we propose the protocol for computational simulations of sirtuin 2 (SIRT2) binding pocket dynamics and its integration into the structure-based virtual screening (SBVS) pipeline. Initially, unbiased molecular dynamics simulations of SIRT2:inhibitor complexes were performed using optimized force field parameters of SIRT2 inhibitors. Time-lagged independent component analysis (tICA) was used to design pocket-related collective variables (CVs) for enhanced sampling of SIRT2 pocket dynamics. Metadynamics simulations in the tICA eigenvector space revealed alternative conformational states of the SIRT2 binding pocket and the existence of a cryptic subpocket. Newly identified SIRT2 conformational states outperformed experimentally resolved states in retrospective SBVS validation. After performing prospective SBVS, compounds from the under-represented portions of the SIRT2 inhibitor chemical space were selected for in vitro evaluation. Two compounds, NDJ18 and NDJ85, were identified as potent and selective SIRT2 inhibitors, which validated the in silico protocol and opened up the possibility for generalization and broadening of its application. The anticancer effects of the most potent compound NDJ18 were examined on the triple-negative breast cancer cell line. Results indicated that NDJ18 represents a promising structure suitable for further evaluation.
PB  - American Chemical Society
T2  - Journal of Chemical Information and Modeling
T1  - Expanding the Accessible Chemical Space of SIRT2 Inhibitors through Exploration of Binding Pocket Dynamics
VL  - 62
IS  - 10
SP  - 2571
EP  - 2585
DO  - 10.1021/acs.jcim.2c00241
ER  - 

@article{
author = "Đoković, Nemanja and Ružić, Dušan and Rahnasto-Rilla, Mina and Srdić-Rajić, Tatjana and Lahtela-Kakkonen, Maija and Nikolić, Katarina",
year = "2022",
abstract = "Considerations of binding pocket dynamics are one of the crucial aspects of the rational design of binders. Identification of alternative conformational states or cryptic subpockets could lead to the discovery of completely novel groups of the ligands. However, experimental characterization of pocket dynamics, besides being expensive, may not be able to elucidate all of the conformational states relevant for drug discovery projects. In this study, we propose the protocol for computational simulations of sirtuin 2 (SIRT2) binding pocket dynamics and its integration into the structure-based virtual screening (SBVS) pipeline. Initially, unbiased molecular dynamics simulations of SIRT2:inhibitor complexes were performed using optimized force field parameters of SIRT2 inhibitors. Time-lagged independent component analysis (tICA) was used to design pocket-related collective variables (CVs) for enhanced sampling of SIRT2 pocket dynamics. Metadynamics simulations in the tICA eigenvector space revealed alternative conformational states of the SIRT2 binding pocket and the existence of a cryptic subpocket. Newly identified SIRT2 conformational states outperformed experimentally resolved states in retrospective SBVS validation. After performing prospective SBVS, compounds from the under-represented portions of the SIRT2 inhibitor chemical space were selected for in vitro evaluation. Two compounds, NDJ18 and NDJ85, were identified as potent and selective SIRT2 inhibitors, which validated the in silico protocol and opened up the possibility for generalization and broadening of its application. The anticancer effects of the most potent compound NDJ18 were examined on the triple-negative breast cancer cell line. Results indicated that NDJ18 represents a promising structure suitable for further evaluation.",
publisher = "American Chemical Society",
journal = "Journal of Chemical Information and Modeling",
title = "Expanding the Accessible Chemical Space of SIRT2 Inhibitors through Exploration of Binding Pocket Dynamics",
volume = "62",
number = "10",
pages = "2571-2585",
doi = "10.1021/acs.jcim.2c00241"
}

Đoković, N., Ružić, D., Rahnasto-Rilla, M., Srdić-Rajić, T., Lahtela-Kakkonen, M.,& Nikolić, K.. (2022). Expanding the Accessible Chemical Space of SIRT2 Inhibitors through Exploration of Binding Pocket Dynamics. in Journal of Chemical Information and Modeling
American Chemical Society., 62(10), 2571-2585.
https://doi.org/10.1021/acs.jcim.2c00241

Đoković N, Ružić D, Rahnasto-Rilla M, Srdić-Rajić T, Lahtela-Kakkonen M, Nikolić K. Expanding the Accessible Chemical Space of SIRT2 Inhibitors through Exploration of Binding Pocket Dynamics. in Journal of Chemical Information and Modeling. 2022;62(10):2571-2585.
doi:10.1021/acs.jcim.2c00241 .

Đoković, Nemanja, Ružić, Dušan, Rahnasto-Rilla, Mina, Srdić-Rajić, Tatjana, Lahtela-Kakkonen, Maija, Nikolić, Katarina, "Expanding the Accessible Chemical Space of SIRT2 Inhibitors through Exploration of Binding Pocket Dynamics" in Journal of Chemical Information and Modeling, 62, no. 10 (2022):2571-2585,
https://doi.org/10.1021/acs.jcim.2c00241 . .

TY  - JOUR
AU  - Ružić, Dušan
AU  - Ellinger, Bernhard
AU  - Đoković, Nemanja
AU  - Santibanez, Juan
AU  - Gul, Sheraz
AU  - Beljkaš, Milan
AU  - Đurić, Ana
AU  - Ganesan, Arasu
AU  - Pavić, Aleksandar
AU  - Srdić-Rajić, Tatjana
AU  - Petković, Miloš
AU  - Nikolić, Katarina
PY  - 2022
UR  - https://farfar.pharmacy.bg.ac.rs/handle/123456789/4368
AB  - Isoform-selective histone deacetylase (HDAC) inhibition is promoted as a rational strategy to develop safer anti-cancer drugs compared to non-selective HDAC inhibitors. Despite this presumed benefit, considerably more non-selective HDAC inhibitors have undergone clinical trials. In this report, we detail the design and discovery of potent HDAC inhibitors, with 1-benzhydryl piperazine as a surface recognition group, that differ in hydrocarbon linker. In vitro HDAC screening identified two selective HDAC6 inhibitors with nanomolar IC50 values, as well as two non-selective nanomolar HDAC inhibitors. Structure-based molecular modeling was employed to study the influence of linker chemistry of synthesized inhibitors on HDAC6 potency. The breast cancer cell lines (MDA-MB-231 and MCF-7) were used to evaluate compound-mediated in vitro anti-cancer, anti-migratory, and anti-invasive activities. Experiments on the zebrafish MDA-MB-231 xenograft model revealed that a novel non-selective HDAC inhibitor with a seven-carbon-atom linker exhibits potent anti-tumor, anti-metastatic, and anti-angiogenic effects when tested at low micromolar concentrations.
PB  - MDPI
T2  - Pharmaceutics
T1  - Discovery of 1-Benzhydryl-Piperazine-Based HDAC Inhibitors with Anti-Breast Cancer Activity: Synthesis, Molecular Modeling, In Vitro and In Vivo Biological Evaluation
VL  - 14
IS  - 12
DO  - 10.3390/pharmaceutics14122600
ER  - 

@article{
author = "Ružić, Dušan and Ellinger, Bernhard and Đoković, Nemanja and Santibanez, Juan and Gul, Sheraz and Beljkaš, Milan and Đurić, Ana and Ganesan, Arasu and Pavić, Aleksandar and Srdić-Rajić, Tatjana and Petković, Miloš and Nikolić, Katarina",
year = "2022",
abstract = "Isoform-selective histone deacetylase (HDAC) inhibition is promoted as a rational strategy to develop safer anti-cancer drugs compared to non-selective HDAC inhibitors. Despite this presumed benefit, considerably more non-selective HDAC inhibitors have undergone clinical trials. In this report, we detail the design and discovery of potent HDAC inhibitors, with 1-benzhydryl piperazine as a surface recognition group, that differ in hydrocarbon linker. In vitro HDAC screening identified two selective HDAC6 inhibitors with nanomolar IC50 values, as well as two non-selective nanomolar HDAC inhibitors. Structure-based molecular modeling was employed to study the influence of linker chemistry of synthesized inhibitors on HDAC6 potency. The breast cancer cell lines (MDA-MB-231 and MCF-7) were used to evaluate compound-mediated in vitro anti-cancer, anti-migratory, and anti-invasive activities. Experiments on the zebrafish MDA-MB-231 xenograft model revealed that a novel non-selective HDAC inhibitor with a seven-carbon-atom linker exhibits potent anti-tumor, anti-metastatic, and anti-angiogenic effects when tested at low micromolar concentrations.",
publisher = "MDPI",
journal = "Pharmaceutics",
title = "Discovery of 1-Benzhydryl-Piperazine-Based HDAC Inhibitors with Anti-Breast Cancer Activity: Synthesis, Molecular Modeling, In Vitro and In Vivo Biological Evaluation",
volume = "14",
number = "12",
doi = "10.3390/pharmaceutics14122600"
}

Ružić, D., Ellinger, B., Đoković, N., Santibanez, J., Gul, S., Beljkaš, M., Đurić, A., Ganesan, A., Pavić, A., Srdić-Rajić, T., Petković, M.,& Nikolić, K.. (2022). Discovery of 1-Benzhydryl-Piperazine-Based HDAC Inhibitors with Anti-Breast Cancer Activity: Synthesis, Molecular Modeling, In Vitro and In Vivo Biological Evaluation. in Pharmaceutics
MDPI., 14(12).
https://doi.org/10.3390/pharmaceutics14122600

Ružić D, Ellinger B, Đoković N, Santibanez J, Gul S, Beljkaš M, Đurić A, Ganesan A, Pavić A, Srdić-Rajić T, Petković M, Nikolić K. Discovery of 1-Benzhydryl-Piperazine-Based HDAC Inhibitors with Anti-Breast Cancer Activity: Synthesis, Molecular Modeling, In Vitro and In Vivo Biological Evaluation. in Pharmaceutics. 2022;14(12).
doi:10.3390/pharmaceutics14122600 .

Ružić, Dušan, Ellinger, Bernhard, Đoković, Nemanja, Santibanez, Juan, Gul, Sheraz, Beljkaš, Milan, Đurić, Ana, Ganesan, Arasu, Pavić, Aleksandar, Srdić-Rajić, Tatjana, Petković, Miloš, Nikolić, Katarina, "Discovery of 1-Benzhydryl-Piperazine-Based HDAC Inhibitors with Anti-Breast Cancer Activity: Synthesis, Molecular Modeling, In Vitro and In Vivo Biological Evaluation" in Pharmaceutics, 14, no. 12 (2022),
https://doi.org/10.3390/pharmaceutics14122600 . .

TY  - JOUR
AU  - Kostić, Srđan
AU  - Vasović, Nebojša
AU  - Todorović, Kristina
AU  - Franović, Igor
PY  - 2020
UR  - https://farfar.pharmacy.bg.ac.rs/handle/123456789/3582
AB  - In present paper authors examined the effect of colored noise on the onset of seismic fault motion. For this purpose, they analyze the dynamics of spring-block model, with 10 all-to all coupled blocks. This spring-block model is considered as a collection of fault patches (with the increased rock friction), which are separated by the material bridges (more petrified parts of the fault). In the first phase of research, authors confirm the presence of autocorrelation in the background of seismic noise, using the measurement of real fault movement, and the recorded ground shaking before and after an earthquake. In the second stage of the research, authors firstly develop a mean-field model, which accurately enough describes the dynamics of a starting block model, with the introduced delayed interaction among the blocks, while colored noise is assumed to be generated by Ornstein-Uhlenbeck process. The results of the analysis indicate the existence of three different dynamical regimes, which correspond to three regimes of fault motion: steady stationary state, aseismic creep and seismic fault motion. The effect of colored noise lies in the possibility of generating the seismic fault motion even for small values of correlation time. Moreover, it is shown that the tight connection between the blocks, i.e. fault patches prevent the occurrence of seismic fault motion.
PB  - Elsevier
T2  - Chaos, Solitons and Fractals
T1  - EFFECT of colored noise on the generation of seismic fault MOVEMENT: Analogy with spring-block model DYNAMICS
VL  - 135
DO  - 10.1016/j.chaos.2020.109726
ER  - 

@article{
author = "Kostić, Srđan and Vasović, Nebojša and Todorović, Kristina and Franović, Igor",
year = "2020",
abstract = "In present paper authors examined the effect of colored noise on the onset of seismic fault motion. For this purpose, they analyze the dynamics of spring-block model, with 10 all-to all coupled blocks. This spring-block model is considered as a collection of fault patches (with the increased rock friction), which are separated by the material bridges (more petrified parts of the fault). In the first phase of research, authors confirm the presence of autocorrelation in the background of seismic noise, using the measurement of real fault movement, and the recorded ground shaking before and after an earthquake. In the second stage of the research, authors firstly develop a mean-field model, which accurately enough describes the dynamics of a starting block model, with the introduced delayed interaction among the blocks, while colored noise is assumed to be generated by Ornstein-Uhlenbeck process. The results of the analysis indicate the existence of three different dynamical regimes, which correspond to three regimes of fault motion: steady stationary state, aseismic creep and seismic fault motion. The effect of colored noise lies in the possibility of generating the seismic fault motion even for small values of correlation time. Moreover, it is shown that the tight connection between the blocks, i.e. fault patches prevent the occurrence of seismic fault motion.",
publisher = "Elsevier",
journal = "Chaos, Solitons and Fractals",
title = "EFFECT of colored noise on the generation of seismic fault MOVEMENT: Analogy with spring-block model DYNAMICS",
volume = "135",
doi = "10.1016/j.chaos.2020.109726"
}

Kostić, S., Vasović, N., Todorović, K.,& Franović, I.. (2020). EFFECT of colored noise on the generation of seismic fault MOVEMENT: Analogy with spring-block model DYNAMICS. in Chaos, Solitons and Fractals
Elsevier., 135.
https://doi.org/10.1016/j.chaos.2020.109726

Kostić S, Vasović N, Todorović K, Franović I. EFFECT of colored noise on the generation of seismic fault MOVEMENT: Analogy with spring-block model DYNAMICS. in Chaos, Solitons and Fractals. 2020;135.
doi:10.1016/j.chaos.2020.109726 .

Kostić, Srđan, Vasović, Nebojša, Todorović, Kristina, Franović, Igor, "EFFECT of colored noise on the generation of seismic fault MOVEMENT: Analogy with spring-block model DYNAMICS" in Chaos, Solitons and Fractals, 135 (2020),
https://doi.org/10.1016/j.chaos.2020.109726 . .

TY  - JOUR
AU  - Albert, Lea
AU  - Penalver, Alberto
AU  - Đoković, Nemanja
AU  - Werel, Laura
AU  - Hoffarth, Malte
AU  - Ružić, Dušan
AU  - Xu, Jing
AU  - Essen, Lars-Oliver
AU  - Nikolić, Katarina
AU  - Dou, Yali
AU  - Vazquez, Olalla
PY  - 2019
UR  - https://farfar.pharmacy.bg.ac.rs/handle/123456789/3258
AB  - Life relies on a myriad of carefully orchestrated processes, in which proteins and their direct interplay ultimately determine cellular function and disease. Modulation of this complex crosstalk has recently attracted attention, even as a novel therapeutic strategy. Herein, we describe the synthesis and characterization of two visible-light-responsive peptide backbone photoswitches based on azobenzene derivatives, to exert optical control over protein-protein interactions (PPI). The novel peptidomimetics undergo fast and reversible isomerization with low photochemical fatigue under alternatively blue-/green-light irradiation cycles. Both bind in the nanomolar range to the protein of interest. Importantly, the best peptidomimetic displays a clear difference between isomers in its protein-binding capacity and, in turn, in its potential to inhibit enzymatic activity through PPI disruption. In addition, crystal structure determination, docking and molecular dynamics calculations allow a molecular interpretation and open up new avenues in the design and synthesis of future photoswitchable PPI modulators.
PB  - Wiley-VCH Verlag GMBH, Weinheim
T2  - Chembiochem
T1  - Modulating Protein-Protein Interactions with Visible-Light-Responsive Peptide Backbone Photoswitches
VL  - 20
IS  - 11
SP  - 1417
EP  - 1429
DO  - 10.1002/cbic.201800737
ER  - 

@article{
author = "Albert, Lea and Penalver, Alberto and Đoković, Nemanja and Werel, Laura and Hoffarth, Malte and Ružić, Dušan and Xu, Jing and Essen, Lars-Oliver and Nikolić, Katarina and Dou, Yali and Vazquez, Olalla",
year = "2019",
abstract = "Life relies on a myriad of carefully orchestrated processes, in which proteins and their direct interplay ultimately determine cellular function and disease. Modulation of this complex crosstalk has recently attracted attention, even as a novel therapeutic strategy. Herein, we describe the synthesis and characterization of two visible-light-responsive peptide backbone photoswitches based on azobenzene derivatives, to exert optical control over protein-protein interactions (PPI). The novel peptidomimetics undergo fast and reversible isomerization with low photochemical fatigue under alternatively blue-/green-light irradiation cycles. Both bind in the nanomolar range to the protein of interest. Importantly, the best peptidomimetic displays a clear difference between isomers in its protein-binding capacity and, in turn, in its potential to inhibit enzymatic activity through PPI disruption. In addition, crystal structure determination, docking and molecular dynamics calculations allow a molecular interpretation and open up new avenues in the design and synthesis of future photoswitchable PPI modulators.",
publisher = "Wiley-VCH Verlag GMBH, Weinheim",
journal = "Chembiochem",
title = "Modulating Protein-Protein Interactions with Visible-Light-Responsive Peptide Backbone Photoswitches",
volume = "20",
number = "11",
pages = "1417-1429",
doi = "10.1002/cbic.201800737"
}

Albert, L., Penalver, A., Đoković, N., Werel, L., Hoffarth, M., Ružić, D., Xu, J., Essen, L., Nikolić, K., Dou, Y.,& Vazquez, O.. (2019). Modulating Protein-Protein Interactions with Visible-Light-Responsive Peptide Backbone Photoswitches. in Chembiochem
Wiley-VCH Verlag GMBH, Weinheim., 20(11), 1417-1429.
https://doi.org/10.1002/cbic.201800737

Albert L, Penalver A, Đoković N, Werel L, Hoffarth M, Ružić D, Xu J, Essen L, Nikolić K, Dou Y, Vazquez O. Modulating Protein-Protein Interactions with Visible-Light-Responsive Peptide Backbone Photoswitches. in Chembiochem. 2019;20(11):1417-1429.
doi:10.1002/cbic.201800737 .

Albert, Lea, Penalver, Alberto, Đoković, Nemanja, Werel, Laura, Hoffarth, Malte, Ružić, Dušan, Xu, Jing, Essen, Lars-Oliver, Nikolić, Katarina, Dou, Yali, Vazquez, Olalla, "Modulating Protein-Protein Interactions with Visible-Light-Responsive Peptide Backbone Photoswitches" in Chembiochem, 20, no. 11 (2019):1417-1429,
https://doi.org/10.1002/cbic.201800737 . .

TY  - JOUR
AU  - Kostić, Srdan
AU  - Vasović, Nebojša
AU  - Franović, Igor
AU  - Todorović, Kristina
AU  - Klinshov, Vladimir
AU  - Nekorkin, Vladimir
PY  - 2017
UR  - https://farfar.pharmacy.bg.ac.rs/handle/123456789/2951
AB  - We examine dynamics of a fault motion by analyzing behavior of a spring-slider model composed of 100 blocks where each block is coupled to a varying number of 2K neighboring units (1 2K N, ). Dynamics of such model is studied under the effect of delayed interaction, variable coupling strength and random seismic noise. The qualitative analysis of stability and bifurcations is carried out by deriving an approximate deterministic mean-field model, which is demonstrated to accurately capture the dynamics of the original stochastic system. The primary effect concerns the direct supercritical Andronov-Hopf bifurcation, which underlies transition from equilibrium state to periodic oscillations under the variation of coupling delay. Nevertheless, the impact of delayed interactions is shown to depend on the coupling strength and the friction force. In particular, for loosely coupled blocks and low values of friction, observed system does not exhibit any bifurcation, regardless of the assumed noise amplitude in the expected range of values. It is also suggested that a group of blocks with the largest displacements, which exhibit nearly regular periodic oscillations analogous to coseismic motion for system parameters just above the bifurcation curve, can be treated as a representative of an earthquake hypocenter. In this case, the distribution of event magnitudes, defined as a natural logarithm of a sum of squared displacements, is found to correspond well to periodic (characteristic) earthquake model.
PB  - Springer, Dordrecht
T2  - Nonlinear Dynamics
T1  - Dynamics of fault motion in a stochastic spring-slider model with varying neighboring interactions and time-delayed coupling
VL  - 87
IS  - 4
SP  - 2563
EP  - 2575
DO  - 10.1007/s11071-016-3211-5
ER  - 

@article{
author = "Kostić, Srdan and Vasović, Nebojša and Franović, Igor and Todorović, Kristina and Klinshov, Vladimir and Nekorkin, Vladimir",
year = "2017",
abstract = "We examine dynamics of a fault motion by analyzing behavior of a spring-slider model composed of 100 blocks where each block is coupled to a varying number of 2K neighboring units (1 2K N, ). Dynamics of such model is studied under the effect of delayed interaction, variable coupling strength and random seismic noise. The qualitative analysis of stability and bifurcations is carried out by deriving an approximate deterministic mean-field model, which is demonstrated to accurately capture the dynamics of the original stochastic system. The primary effect concerns the direct supercritical Andronov-Hopf bifurcation, which underlies transition from equilibrium state to periodic oscillations under the variation of coupling delay. Nevertheless, the impact of delayed interactions is shown to depend on the coupling strength and the friction force. In particular, for loosely coupled blocks and low values of friction, observed system does not exhibit any bifurcation, regardless of the assumed noise amplitude in the expected range of values. It is also suggested that a group of blocks with the largest displacements, which exhibit nearly regular periodic oscillations analogous to coseismic motion for system parameters just above the bifurcation curve, can be treated as a representative of an earthquake hypocenter. In this case, the distribution of event magnitudes, defined as a natural logarithm of a sum of squared displacements, is found to correspond well to periodic (characteristic) earthquake model.",
publisher = "Springer, Dordrecht",
journal = "Nonlinear Dynamics",
title = "Dynamics of fault motion in a stochastic spring-slider model with varying neighboring interactions and time-delayed coupling",
volume = "87",
number = "4",
pages = "2563-2575",
doi = "10.1007/s11071-016-3211-5"
}

Kostić, S., Vasović, N., Franović, I., Todorović, K., Klinshov, V.,& Nekorkin, V.. (2017). Dynamics of fault motion in a stochastic spring-slider model with varying neighboring interactions and time-delayed coupling. in Nonlinear Dynamics
Springer, Dordrecht., 87(4), 2563-2575.
https://doi.org/10.1007/s11071-016-3211-5

Kostić S, Vasović N, Franović I, Todorović K, Klinshov V, Nekorkin V. Dynamics of fault motion in a stochastic spring-slider model with varying neighboring interactions and time-delayed coupling. in Nonlinear Dynamics. 2017;87(4):2563-2575.
doi:10.1007/s11071-016-3211-5 .

Kostić, Srdan, Vasović, Nebojša, Franović, Igor, Todorović, Kristina, Klinshov, Vladimir, Nekorkin, Vladimir, "Dynamics of fault motion in a stochastic spring-slider model with varying neighboring interactions and time-delayed coupling" in Nonlinear Dynamics, 87, no. 4 (2017):2563-2575,
https://doi.org/10.1007/s11071-016-3211-5 . .

TY  - JOUR
AU  - Franović, Igor
AU  - Todorović, Kristina
AU  - Perc, Matjaz
AU  - Vasović, Nebojša
AU  - Burić, Nikola
PY  - 2015
UR  - https://farfar.pharmacy.bg.ac.rs/handle/123456789/2311
AB  - We consider the coaction of two distinct noise sources on the activation process of a single excitable unit and two interacting excitable units, which are mathematically described by the Fitzhugh-Nagumo equations. We determine the most probable activation paths around which the corresponding stochastic trajectories are clustered. The key point lies in introducing appropriate boundary conditions that are relevant for a class II excitable unit, which can be immediately generalized also to scenarios involving two coupled units. We analyze the effects of the two noise sources on the statistical features of the activation process, in particular demonstrating how these are modified due to the linear or nonlinear form of interactions. Universal properties of the activation process are qualitatively discussed in the light of a stochastic bifurcation that underlies the transition from a stochastically stable fixed point to continuous oscillations.
PB  - Amer Physical Soc, College Pk
T2  - Physical Review E
T1  - Activation process in excitable systems with multiple noise sources: One and two interacting units
VL  - 92
IS  - 6
DO  - 10.1103/PhysRevE.92.062911
ER  - 

@article{
author = "Franović, Igor and Todorović, Kristina and Perc, Matjaz and Vasović, Nebojša and Burić, Nikola",
year = "2015",
abstract = "We consider the coaction of two distinct noise sources on the activation process of a single excitable unit and two interacting excitable units, which are mathematically described by the Fitzhugh-Nagumo equations. We determine the most probable activation paths around which the corresponding stochastic trajectories are clustered. The key point lies in introducing appropriate boundary conditions that are relevant for a class II excitable unit, which can be immediately generalized also to scenarios involving two coupled units. We analyze the effects of the two noise sources on the statistical features of the activation process, in particular demonstrating how these are modified due to the linear or nonlinear form of interactions. Universal properties of the activation process are qualitatively discussed in the light of a stochastic bifurcation that underlies the transition from a stochastically stable fixed point to continuous oscillations.",
publisher = "Amer Physical Soc, College Pk",
journal = "Physical Review E",
title = "Activation process in excitable systems with multiple noise sources: One and two interacting units",
volume = "92",
number = "6",
doi = "10.1103/PhysRevE.92.062911"
}

Franović, I., Todorović, K., Perc, M., Vasović, N.,& Burić, N.. (2015). Activation process in excitable systems with multiple noise sources: One and two interacting units. in Physical Review E
Amer Physical Soc, College Pk., 92(6).
https://doi.org/10.1103/PhysRevE.92.062911

Franović I, Todorović K, Perc M, Vasović N, Burić N. Activation process in excitable systems with multiple noise sources: One and two interacting units. in Physical Review E. 2015;92(6).
doi:10.1103/PhysRevE.92.062911 .

Franović, Igor, Todorović, Kristina, Perc, Matjaz, Vasović, Nebojša, Burić, Nikola, "Activation process in excitable systems with multiple noise sources: One and two interacting units" in Physical Review E, 92, no. 6 (2015),
https://doi.org/10.1103/PhysRevE.92.062911 . .

TY  - JOUR
AU  - Franović, Igor
AU  - Perc, Matjaz
AU  - Todorović, Kristina
AU  - Kostić, Srđan
AU  - Burić, Nikola
PY  - 2015
UR  - https://farfar.pharmacy.bg.ac.rs/handle/123456789/2309
AB  - We study the activation process in large assemblies of type II excitable units whose dynamics is influenced by two independent noise terms. The mean-field approach is applied to explicitly demonstrate that the assembly of excitable units can itself exhibit macroscopic excitable behavior. In order to facilitate the comparison between the excitable dynamics of a single unit and an assembly, we introduce three distinct formulations of the assembly activation event. Each formulation treats different aspects of the relevant phenomena, including the thresholdlike behavior and the role of coherence of individual spikes. Statistical properties of the assembly activation process, such as the mean time-to-first pulse and the associated coefficient of variation, are found to be qualitatively analogous for all three formulations, as well as to resemble the results for a single unit. These analogies are shown to derive from the fact that global variables undergo a stochastic bifurcation from the stochastically stable fixed point to continuous oscillations. Local activation processes are analyzed in the light of the competition between the noise-led and the relaxation-driven dynamics. We also briefly report on a system-size antiresonant effect displayed by the mean time-to-first pulse.
PB  - Amer Physical Soc, College Pk
T2  - Physical Review E
T1  - Activation process in excitable systems with multiple noise sources: Large number of units
VL  - 92
IS  - 6
DO  - 10.1103/PhysRevE.92.062912
ER  - 

@article{
author = "Franović, Igor and Perc, Matjaz and Todorović, Kristina and Kostić, Srđan and Burić, Nikola",
year = "2015",
abstract = "We study the activation process in large assemblies of type II excitable units whose dynamics is influenced by two independent noise terms. The mean-field approach is applied to explicitly demonstrate that the assembly of excitable units can itself exhibit macroscopic excitable behavior. In order to facilitate the comparison between the excitable dynamics of a single unit and an assembly, we introduce three distinct formulations of the assembly activation event. Each formulation treats different aspects of the relevant phenomena, including the thresholdlike behavior and the role of coherence of individual spikes. Statistical properties of the assembly activation process, such as the mean time-to-first pulse and the associated coefficient of variation, are found to be qualitatively analogous for all three formulations, as well as to resemble the results for a single unit. These analogies are shown to derive from the fact that global variables undergo a stochastic bifurcation from the stochastically stable fixed point to continuous oscillations. Local activation processes are analyzed in the light of the competition between the noise-led and the relaxation-driven dynamics. We also briefly report on a system-size antiresonant effect displayed by the mean time-to-first pulse.",
publisher = "Amer Physical Soc, College Pk",
journal = "Physical Review E",
title = "Activation process in excitable systems with multiple noise sources: Large number of units",
volume = "92",
number = "6",
doi = "10.1103/PhysRevE.92.062912"
}

Franović, I., Perc, M., Todorović, K., Kostić, S.,& Burić, N.. (2015). Activation process in excitable systems with multiple noise sources: Large number of units. in Physical Review E
Amer Physical Soc, College Pk., 92(6).
https://doi.org/10.1103/PhysRevE.92.062912

Franović I, Perc M, Todorović K, Kostić S, Burić N. Activation process in excitable systems with multiple noise sources: Large number of units. in Physical Review E. 2015;92(6).
doi:10.1103/PhysRevE.92.062912 .

Franović, Igor, Perc, Matjaz, Todorović, Kristina, Kostić, Srđan, Burić, Nikola, "Activation process in excitable systems with multiple noise sources: Large number of units" in Physical Review E, 92, no. 6 (2015),
https://doi.org/10.1103/PhysRevE.92.062912 . .

TY  - JOUR
AU  - Franović, Igor
AU  - Todorović, Kristina
AU  - Vasović, Nebojša
AU  - Burić, Nikola
PY  - 2014
UR  - https://farfar.pharmacy.bg.ac.rs/handle/123456789/2181
AB  - We consider the approximations behind the typical mean-field model derived for a class of systems made up of type II excitable units influenced by noise and coupling delays. The formulation of the two approximations, referred to as the Gaussian and the quasi-independence approximation, as well as the fashion in which their validity is verified, are adapted to reflect the essential properties of the underlying system. It is demonstrated that the failure of the mean-field model associated with the breakdown of the quasi-independence approximation can be predicted by the noise-induced bistability in the dynamics of the mean-field system. As for the Gaussian approximation, its violation is related to the increase of noise intensity, but the actual condition for failure can be cast in qualitative, rather than quantitative terms. We also discuss how the fulfillment of the mean-field approximations affects the statistics of the first return times for the local and global variables, further exploring the link between the fulfillment of the quasi-independence approximation and certain forms of synchronization between the individual units.
PB  - Amer Physical Soc, College Pk
T2  - Physical Review E
T1  - Persistence and failure of mean-field approximations adapted to a class of systems of delay-coupled excitable units
VL  - 89
IS  - 2
DO  - 10.1103/PhysRevE.89.022926
ER  - 

@article{
author = "Franović, Igor and Todorović, Kristina and Vasović, Nebojša and Burić, Nikola",
year = "2014",
abstract = "We consider the approximations behind the typical mean-field model derived for a class of systems made up of type II excitable units influenced by noise and coupling delays. The formulation of the two approximations, referred to as the Gaussian and the quasi-independence approximation, as well as the fashion in which their validity is verified, are adapted to reflect the essential properties of the underlying system. It is demonstrated that the failure of the mean-field model associated with the breakdown of the quasi-independence approximation can be predicted by the noise-induced bistability in the dynamics of the mean-field system. As for the Gaussian approximation, its violation is related to the increase of noise intensity, but the actual condition for failure can be cast in qualitative, rather than quantitative terms. We also discuss how the fulfillment of the mean-field approximations affects the statistics of the first return times for the local and global variables, further exploring the link between the fulfillment of the quasi-independence approximation and certain forms of synchronization between the individual units.",
publisher = "Amer Physical Soc, College Pk",
journal = "Physical Review E",
title = "Persistence and failure of mean-field approximations adapted to a class of systems of delay-coupled excitable units",
volume = "89",
number = "2",
doi = "10.1103/PhysRevE.89.022926"
}

Franović, I., Todorović, K., Vasović, N.,& Burić, N.. (2014). Persistence and failure of mean-field approximations adapted to a class of systems of delay-coupled excitable units. in Physical Review E
Amer Physical Soc, College Pk., 89(2).
https://doi.org/10.1103/PhysRevE.89.022926

Franović I, Todorović K, Vasović N, Burić N. Persistence and failure of mean-field approximations adapted to a class of systems of delay-coupled excitable units. in Physical Review E. 2014;89(2).
doi:10.1103/PhysRevE.89.022926 .

Franović, Igor, Todorović, Kristina, Vasović, Nebojša, Burić, Nikola, "Persistence and failure of mean-field approximations adapted to a class of systems of delay-coupled excitable units" in Physical Review E, 89, no. 2 (2014),
https://doi.org/10.1103/PhysRevE.89.022926 . .

TY  - JOUR
AU  - Franović, Igor
AU  - Todorović, Kristina
AU  - Vasović, Nebojša
AU  - Burić, Nikola
PY  - 2014
UR  - https://farfar.pharmacy.bg.ac.rs/handle/123456789/2166
AB  - We study the onset and the adjustment of different oscillatory modes in a system of excitable units subjected to two forms of noise and delays cast as external or internal according to whether they are associated with inter- or intra-unit activity. Conditions for stability of a single unit are derived in case of the linearized perturbed system, whereas the interplay of noise and internal delay in shaping the oscillatory motion is analyzed by the method of statistical linearization. It is demonstrated that the internal delay, as well as its coaction with external noise, drive the unit away from the bifurcation controlled by the excitability parameter. For the pair of interacting units, it is shown that the external/internal character of noise primarily influences frequency synchronization and the competition between the noise-induced and delay-driven oscillatory modes, while coherence of firing and phase synchronization substantially depend on internal delay. Some of the important effects include: (i) loss of frequency synchronization under external noise; (ii) existence of characteristic regimes of entrainment, where under variation of coupling delay, the optimized unit (noise intensity fixed at resonant value) may be controlled by the adjustable unit (variable noise) and vice versa, or both units may become adjusted to coupling delay; (iii) phase synchronization achieved both for noise-induced and delay-driven modes.
PB  - Elsevier Science BV, Amsterdam
T2  - Communications in Nonlinear Science and Numerical Simulation
T1  - Stability, coherent spiking and synchronization in noisy excitable systems with coupling and internal delays
VL  - 19
IS  - 9
SP  - 3202
EP  - 3219
DO  - 10.1016/j.cnsns.2014.02.022
ER  - 

@article{
author = "Franović, Igor and Todorović, Kristina and Vasović, Nebojša and Burić, Nikola",
year = "2014",
abstract = "We study the onset and the adjustment of different oscillatory modes in a system of excitable units subjected to two forms of noise and delays cast as external or internal according to whether they are associated with inter- or intra-unit activity. Conditions for stability of a single unit are derived in case of the linearized perturbed system, whereas the interplay of noise and internal delay in shaping the oscillatory motion is analyzed by the method of statistical linearization. It is demonstrated that the internal delay, as well as its coaction with external noise, drive the unit away from the bifurcation controlled by the excitability parameter. For the pair of interacting units, it is shown that the external/internal character of noise primarily influences frequency synchronization and the competition between the noise-induced and delay-driven oscillatory modes, while coherence of firing and phase synchronization substantially depend on internal delay. Some of the important effects include: (i) loss of frequency synchronization under external noise; (ii) existence of characteristic regimes of entrainment, where under variation of coupling delay, the optimized unit (noise intensity fixed at resonant value) may be controlled by the adjustable unit (variable noise) and vice versa, or both units may become adjusted to coupling delay; (iii) phase synchronization achieved both for noise-induced and delay-driven modes.",
publisher = "Elsevier Science BV, Amsterdam",
journal = "Communications in Nonlinear Science and Numerical Simulation",
title = "Stability, coherent spiking and synchronization in noisy excitable systems with coupling and internal delays",
volume = "19",
number = "9",
pages = "3202-3219",
doi = "10.1016/j.cnsns.2014.02.022"
}

Franović, I., Todorović, K., Vasović, N.,& Burić, N.. (2014). Stability, coherent spiking and synchronization in noisy excitable systems with coupling and internal delays. in Communications in Nonlinear Science and Numerical Simulation
Elsevier Science BV, Amsterdam., 19(9), 3202-3219.
https://doi.org/10.1016/j.cnsns.2014.02.022

Franović I, Todorović K, Vasović N, Burić N. Stability, coherent spiking and synchronization in noisy excitable systems with coupling and internal delays. in Communications in Nonlinear Science and Numerical Simulation. 2014;19(9):3202-3219.
doi:10.1016/j.cnsns.2014.02.022 .

Franović, Igor, Todorović, Kristina, Vasović, Nebojša, Burić, Nikola, "Stability, coherent spiking and synchronization in noisy excitable systems with coupling and internal delays" in Communications in Nonlinear Science and Numerical Simulation, 19, no. 9 (2014):3202-3219,
https://doi.org/10.1016/j.cnsns.2014.02.022 . .

TY  - JOUR
AU  - Franović, Igor
AU  - Todorović, Kristina
AU  - Vasović, Nebojša
AU  - Burić, Nikola
PY  - 2013
UR  - https://farfar.pharmacy.bg.ac.rs/handle/123456789/1948
AB  - The analysis on stability and bifurcations in the macroscopic dynamics exhibited by the system of two coupled large populations composed of N stochastic excitable units each is performed by studying an approximate system, obtained by replacing each population with the corresponding mean-field model. In the exact system, one has the units within an ensemble communicating via the time-delayed linear couplings, whereas the interensemble terms involve the nonlinear time-delayed interaction mediated by the appropriate global variables. The aim is to demonstrate that the bifurcations affecting the stability of the stationary state of the original system, governed by a set of 4N stochastic delay-differential equations for the microscopic dynamics, can accurately be reproduced by a flow containing just four deterministic delay-differential equations which describe the evolution of the mean-field based variables. In particular, the considered issues include determining the parameter domains where the stationary state is stable, the scenarios for the onset, and the time-delay induced suppression of the collective mode, as well as the parameter domains admitting bistability between the equilibrium and the oscillatory state. We show how analytically tractable bifurcations occurring in the approximate model can be used to identify the characteristic mechanisms by which the stationary state is destabilized under different system configurations, like those with symmetrical or asymmetrical interpopulation couplings. DOI: 10.1103/PhysRevE.87.012922
PB  - Amer Physical Soc, College Pk
T2  - Physical Review E
T1  - Mean-field approximation of two coupled populations of excitable units
VL  - 87
IS  - 1
DO  - 10.1103/PhysRevE.87.012922
ER  - 

@article{
author = "Franović, Igor and Todorović, Kristina and Vasović, Nebojša and Burić, Nikola",
year = "2013",
abstract = "The analysis on stability and bifurcations in the macroscopic dynamics exhibited by the system of two coupled large populations composed of N stochastic excitable units each is performed by studying an approximate system, obtained by replacing each population with the corresponding mean-field model. In the exact system, one has the units within an ensemble communicating via the time-delayed linear couplings, whereas the interensemble terms involve the nonlinear time-delayed interaction mediated by the appropriate global variables. The aim is to demonstrate that the bifurcations affecting the stability of the stationary state of the original system, governed by a set of 4N stochastic delay-differential equations for the microscopic dynamics, can accurately be reproduced by a flow containing just four deterministic delay-differential equations which describe the evolution of the mean-field based variables. In particular, the considered issues include determining the parameter domains where the stationary state is stable, the scenarios for the onset, and the time-delay induced suppression of the collective mode, as well as the parameter domains admitting bistability between the equilibrium and the oscillatory state. We show how analytically tractable bifurcations occurring in the approximate model can be used to identify the characteristic mechanisms by which the stationary state is destabilized under different system configurations, like those with symmetrical or asymmetrical interpopulation couplings. DOI: 10.1103/PhysRevE.87.012922",
publisher = "Amer Physical Soc, College Pk",
journal = "Physical Review E",
title = "Mean-field approximation of two coupled populations of excitable units",
volume = "87",
number = "1",
doi = "10.1103/PhysRevE.87.012922"
}

Franović, I., Todorović, K., Vasović, N.,& Burić, N.. (2013). Mean-field approximation of two coupled populations of excitable units. in Physical Review E
Amer Physical Soc, College Pk., 87(1).
https://doi.org/10.1103/PhysRevE.87.012922

Franović I, Todorović K, Vasović N, Burić N. Mean-field approximation of two coupled populations of excitable units. in Physical Review E. 2013;87(1).
doi:10.1103/PhysRevE.87.012922 .

Franović, Igor, Todorović, Kristina, Vasović, Nebojša, Burić, Nikola, "Mean-field approximation of two coupled populations of excitable units" in Physical Review E, 87, no. 1 (2013),
https://doi.org/10.1103/PhysRevE.87.012922 . .

TY  - JOUR
AU  - Vasović, Nebojša
AU  - Burić, Nikola
AU  - Todorović, Kristina
AU  - Grozdanović, Ines
PY  - 2012
UR  - https://farfar.pharmacy.bg.ac.rs/handle/123456789/1725
AB  - The minimal two-dimensional model of bursting neuronal dynamics is used to study the influence of time-delay on the properties of synchronization of bursting neurons. Generic properties of bursting and dependence of the stability of synchronization on the time-lag and the strength of coupling are described, and compared with the two common types of synaptical coupling, i.e., time-delayed chemical and electrical synapses.
PB  - Iop Publishing Ltd, Bristol
T2  - Chinese Physics B
T1  - Synchronization of the minimal models of bursting neurons coupled by delayed chemical or electrical synapses
VL  - 21
IS  - 1
DO  - 10.1088/1674-1056/21/1/010203
ER  - 

@article{
author = "Vasović, Nebojša and Burić, Nikola and Todorović, Kristina and Grozdanović, Ines",
year = "2012",
abstract = "The minimal two-dimensional model of bursting neuronal dynamics is used to study the influence of time-delay on the properties of synchronization of bursting neurons. Generic properties of bursting and dependence of the stability of synchronization on the time-lag and the strength of coupling are described, and compared with the two common types of synaptical coupling, i.e., time-delayed chemical and electrical synapses.",
publisher = "Iop Publishing Ltd, Bristol",
journal = "Chinese Physics B",
title = "Synchronization of the minimal models of bursting neurons coupled by delayed chemical or electrical synapses",
volume = "21",
number = "1",
doi = "10.1088/1674-1056/21/1/010203"
}

Vasović, N., Burić, N., Todorović, K.,& Grozdanović, I.. (2012). Synchronization of the minimal models of bursting neurons coupled by delayed chemical or electrical synapses. in Chinese Physics B
Iop Publishing Ltd, Bristol., 21(1).
https://doi.org/10.1088/1674-1056/21/1/010203

Vasović N, Burić N, Todorović K, Grozdanović I. Synchronization of the minimal models of bursting neurons coupled by delayed chemical or electrical synapses. in Chinese Physics B. 2012;21(1).
doi:10.1088/1674-1056/21/1/010203 .

Vasović, Nebojša, Burić, Nikola, Todorović, Kristina, Grozdanović, Ines, "Synchronization of the minimal models of bursting neurons coupled by delayed chemical or electrical synapses" in Chinese Physics B, 21, no. 1 (2012),
https://doi.org/10.1088/1674-1056/21/1/010203 . .

TY  - JOUR
AU  - Franović, Igor
AU  - Todorović, Kristina
AU  - Vasović, Nebojša
AU  - Burić, Nikola
PY  - 2012
UR  - https://farfar.pharmacy.bg.ac.rs/handle/123456789/1695
AB  - The spontaneous formation of clusters of synchronized spiking in a structureless ensemble of equal stochastically perturbed excitable neurons with delayed coupling is demonstrated for the first time. The effect is a consequence of a subtle interplay between interaction delays, noise, and the excitable character of a single neuron. The dependence of the cluster properties on the time lag, noise intensity, and the synaptic strength is investigated.
PB  - Amer Physical Soc, College Pk
T2  - Physical Review Letters
T1  - Spontaneous Formation of Synchronization Clusters in Homogenous Neuronal Ensembles Induced by Noise and Interaction Delays
VL  - 108
IS  - 9
DO  - 10.1103/PhysRevLett.108.094101
ER  - 

@article{
author = "Franović, Igor and Todorović, Kristina and Vasović, Nebojša and Burić, Nikola",
year = "2012",
abstract = "The spontaneous formation of clusters of synchronized spiking in a structureless ensemble of equal stochastically perturbed excitable neurons with delayed coupling is demonstrated for the first time. The effect is a consequence of a subtle interplay between interaction delays, noise, and the excitable character of a single neuron. The dependence of the cluster properties on the time lag, noise intensity, and the synaptic strength is investigated.",
publisher = "Amer Physical Soc, College Pk",
journal = "Physical Review Letters",
title = "Spontaneous Formation of Synchronization Clusters in Homogenous Neuronal Ensembles Induced by Noise and Interaction Delays",
volume = "108",
number = "9",
doi = "10.1103/PhysRevLett.108.094101"
}

Franović, I., Todorović, K., Vasović, N.,& Burić, N.. (2012). Spontaneous Formation of Synchronization Clusters in Homogenous Neuronal Ensembles Induced by Noise and Interaction Delays. in Physical Review Letters
Amer Physical Soc, College Pk., 108(9).
https://doi.org/10.1103/PhysRevLett.108.094101

Franović I, Todorović K, Vasović N, Burić N. Spontaneous Formation of Synchronization Clusters in Homogenous Neuronal Ensembles Induced by Noise and Interaction Delays. in Physical Review Letters. 2012;108(9).
doi:10.1103/PhysRevLett.108.094101 .

Franović, Igor, Todorović, Kristina, Vasović, Nebojša, Burić, Nikola, "Spontaneous Formation of Synchronization Clusters in Homogenous Neuronal Ensembles Induced by Noise and Interaction Delays" in Physical Review Letters, 108, no. 9 (2012),
https://doi.org/10.1103/PhysRevLett.108.094101 . .

TY  - JOUR
AU  - Franović, Igor
AU  - Todorović, Kristina
AU  - Vasović, Nebojša
AU  - Burić, Nikola
PY  - 2012
UR  - https://farfar.pharmacy.bg.ac.rs/handle/123456789/1647
AB  - Properties of spontaneously formed clusters of synchronous dynamics in a structureless network of noisy excitable neurons connected via delayed diffusive couplings are studied in detail. Several tools have been applied to characterize the synchronization clusters and to study their dependence on the neuronal and the synaptic parameters. Qualitative explanation of the cluster formation is discussed. The interplay between the noise, the interaction time-delay and the excitable character of the neuronal dynamics is shown to be necessary and sufficient for the occurrence of the synchronization clusters. We have found the two-cluster partitions where neurons are firmly bound to their subsets, as well as the three-cluster ones, which are dynamical by nature. The former turn out to be stable under small disparity of the intrinsic neuronal parameters and the heterogeneity in the synaptic connectivity patterns.
PB  - Amer Inst Physics, Melville
T2  - Chaos
T1  - Cluster synchronization of spiking induced by noise and interaction delays in homogenous neuronal ensembles
VL  - 22
IS  - 3
DO  - 10.1063/1.4753919
ER  - 

@article{
author = "Franović, Igor and Todorović, Kristina and Vasović, Nebojša and Burić, Nikola",
year = "2012",
abstract = "Properties of spontaneously formed clusters of synchronous dynamics in a structureless network of noisy excitable neurons connected via delayed diffusive couplings are studied in detail. Several tools have been applied to characterize the synchronization clusters and to study their dependence on the neuronal and the synaptic parameters. Qualitative explanation of the cluster formation is discussed. The interplay between the noise, the interaction time-delay and the excitable character of the neuronal dynamics is shown to be necessary and sufficient for the occurrence of the synchronization clusters. We have found the two-cluster partitions where neurons are firmly bound to their subsets, as well as the three-cluster ones, which are dynamical by nature. The former turn out to be stable under small disparity of the intrinsic neuronal parameters and the heterogeneity in the synaptic connectivity patterns.",
publisher = "Amer Inst Physics, Melville",
journal = "Chaos",
title = "Cluster synchronization of spiking induced by noise and interaction delays in homogenous neuronal ensembles",
volume = "22",
number = "3",
doi = "10.1063/1.4753919"
}

Franović, I., Todorović, K., Vasović, N.,& Burić, N.. (2012). Cluster synchronization of spiking induced by noise and interaction delays in homogenous neuronal ensembles. in Chaos
Amer Inst Physics, Melville., 22(3).
https://doi.org/10.1063/1.4753919

Franović I, Todorović K, Vasović N, Burić N. Cluster synchronization of spiking induced by noise and interaction delays in homogenous neuronal ensembles. in Chaos. 2012;22(3).
doi:10.1063/1.4753919 .

Franović, Igor, Todorović, Kristina, Vasović, Nebojša, Burić, Nikola, "Cluster synchronization of spiking induced by noise and interaction delays in homogenous neuronal ensembles" in Chaos, 22, no. 3 (2012),
https://doi.org/10.1063/1.4753919 . .

TY  - JOUR
AU  - Burić, Nikola
AU  - Grozdanović, Ines
AU  - Todorović, Kristina
AU  - Vasović, Nebojša
PY  - 2011
UR  - https://farfar.pharmacy.bg.ac.rs/handle/123456789/1505
AB  - Influence of small time-delays in coupling between noisy excitable systems on the coherence resonance and self-induced stochastic resonance is studied. Parameters of delayed coupled deterministic excitable units are chosen such that the system has only one attractor, namely the stationary state, for any value of the coupling and the time-lag. Addition of white noise induces qualitatively different types of coherent oscillations, and we analyzed the influence of coupling time-delay on the properties of these coherent oscillations. The main conclusion is that time-lag tau >= 1, but still smaller than the refractory period, and sufficiently strong coupling drastically change signal to noise ratio in the quantitative and qualitative way. An interval of noise values implies quite large signal to noise ratio and different types of noise induced coherence are greatly enhanced. We also observed coincident spiking for small noise intensity and time-lag proportional to the inter-spike interval of the coherent spike trains. On the other hand, time-lags tau  lt  1 and/or weak coupling induce negligible changes in the properties of the stochastic coherence.
PB  - Springer, New York
T2  - Journal of Statistical Physics
T1  - Influence of Coupling Delay on Noise Induced Coherent Oscillations in Excitable Systems
VL  - 145
IS  - 1
SP  - 175
EP  - 186
DO  - 10.1007/s10955-011-0316-6
ER  - 

@article{
author = "Burić, Nikola and Grozdanović, Ines and Todorović, Kristina and Vasović, Nebojša",
year = "2011",
abstract = "Influence of small time-delays in coupling between noisy excitable systems on the coherence resonance and self-induced stochastic resonance is studied. Parameters of delayed coupled deterministic excitable units are chosen such that the system has only one attractor, namely the stationary state, for any value of the coupling and the time-lag. Addition of white noise induces qualitatively different types of coherent oscillations, and we analyzed the influence of coupling time-delay on the properties of these coherent oscillations. The main conclusion is that time-lag tau >= 1, but still smaller than the refractory period, and sufficiently strong coupling drastically change signal to noise ratio in the quantitative and qualitative way. An interval of noise values implies quite large signal to noise ratio and different types of noise induced coherence are greatly enhanced. We also observed coincident spiking for small noise intensity and time-lag proportional to the inter-spike interval of the coherent spike trains. On the other hand, time-lags tau  lt  1 and/or weak coupling induce negligible changes in the properties of the stochastic coherence.",
publisher = "Springer, New York",
journal = "Journal of Statistical Physics",
title = "Influence of Coupling Delay on Noise Induced Coherent Oscillations in Excitable Systems",
volume = "145",
number = "1",
pages = "175-186",
doi = "10.1007/s10955-011-0316-6"
}

Burić, N., Grozdanović, I., Todorović, K.,& Vasović, N.. (2011). Influence of Coupling Delay on Noise Induced Coherent Oscillations in Excitable Systems. in Journal of Statistical Physics
Springer, New York., 145(1), 175-186.
https://doi.org/10.1007/s10955-011-0316-6

Burić N, Grozdanović I, Todorović K, Vasović N. Influence of Coupling Delay on Noise Induced Coherent Oscillations in Excitable Systems. in Journal of Statistical Physics. 2011;145(1):175-186.
doi:10.1007/s10955-011-0316-6 .

Burić, Nikola, Grozdanović, Ines, Todorović, Kristina, Vasović, Nebojša, "Influence of Coupling Delay on Noise Induced Coherent Oscillations in Excitable Systems" in Journal of Statistical Physics, 145, no. 1 (2011):175-186,
https://doi.org/10.1007/s10955-011-0316-6 . .

TY  - JOUR
AU  - Franović, Igor
AU  - Todorović, Kristina
AU  - Vasović, Nebojša
AU  - Burić, Nikola
PY  - 2011
UR  - https://farfar.pharmacy.bg.ac.rs/handle/123456789/1457
AB  - An approximate mean field model of an ensemble of delayed coupled stochastic Hindmarsh-Rose bursting neurons is constructed and analyzed. Bifurcation analysis of the approximate system is performed using numerical continuation. It is demonstrated that the stability domains in the parameter space of the large exact systems are correctly estimated using the much simpler approximate model.
PB  - Amer Inst Physics, Melville
T2  - Chaos
T1  - Stability, bifurcations, and dynamics of global variables of a system of bursting neurons
VL  - 21
IS  - 3
DO  - 10.1063/1.3619293
ER  - 

@article{
author = "Franović, Igor and Todorović, Kristina and Vasović, Nebojša and Burić, Nikola",
year = "2011",
abstract = "An approximate mean field model of an ensemble of delayed coupled stochastic Hindmarsh-Rose bursting neurons is constructed and analyzed. Bifurcation analysis of the approximate system is performed using numerical continuation. It is demonstrated that the stability domains in the parameter space of the large exact systems are correctly estimated using the much simpler approximate model.",
publisher = "Amer Inst Physics, Melville",
journal = "Chaos",
title = "Stability, bifurcations, and dynamics of global variables of a system of bursting neurons",
volume = "21",
number = "3",
doi = "10.1063/1.3619293"
}

Franović, I., Todorović, K., Vasović, N.,& Burić, N.. (2011). Stability, bifurcations, and dynamics of global variables of a system of bursting neurons. in Chaos
Amer Inst Physics, Melville., 21(3).
https://doi.org/10.1063/1.3619293

Franović I, Todorović K, Vasović N, Burić N. Stability, bifurcations, and dynamics of global variables of a system of bursting neurons. in Chaos. 2011;21(3).
doi:10.1063/1.3619293 .

Franović, Igor, Todorović, Kristina, Vasović, Nebojša, Burić, Nikola, "Stability, bifurcations, and dynamics of global variables of a system of bursting neurons" in Chaos, 21, no. 3 (2011),
https://doi.org/10.1063/1.3619293 . .