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Yayınlar

Inverse stochastic resonance in networks of spiking neurons
Synthesis and characterization of ozonated oil nanoemulsions
Vibrational resonance in a heterogeneous scale free network of neurons
Impacts of hybrid synapses on the noise-delayed decay in scale-free neural networks
Osteogenic activities of polymeric soybean oil-g-polystyrene membranes
Noise-delayed decay in the response of a scale-free neuronal network
Chaotic resonance in Hodgkin-Huxley neuron
Controlling the first-spike latency response of a single neuron via unreliable synaptic transmission
Double inverse stochastic resonance with dynamic synapses
Inverse stochastic resonance induced by synaptic background activity with unreliable synapses
Effects of dynamic synapses on noise-delayed response latency of a single neuron
Collective firing regularity of a scale-free Hodgkin-Huxley neuronal network in response to a subthreshold signal

- Mühendislik Fakültesi 38
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- Makale Koleksiyonu (Bilgisayar Mühendisliği Bölümü) 1 Daha fazlası Daha az

- Özer, Mahmut 18
- Uzuntarla, Muhammet 15
- Yılmaz, Ergin 15
- Baysal, Veli 7
- Hazer, Baki 5
- Perc, Matjaž 5
- Torres, Joaquin J. 4
- Çalım, Ali 4
- Barreto, Ernest 3
- Tığlı-Aydın, Rahime Seda 3
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- Uzun, Rukiye 2
- Acar, Bahadır 1
- Acar, Merve 1 Daha fazlası Daha az

- Autapse 3
- Channel noise 3
- Scale-free network 3
- Soybean oil 3
- Vibrational resonance 3
- Hodgkin–Huxley neuron 2
- PLA 2
- Stochastic resonance 2
- ANN 1
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- Bifurcation 1
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- Blocking of weak signal 1
- Bone tissue engineering 1 Daha fazlası Daha az

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- Physica A: Statistical Mechanics and its Applications 5
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Uzuntarla, Muhammet | Barreto, Ernest | Torres, Joaquin J.

Makale | 2017 | PLoS Computational Biology13 ( 7 )

Inverse Stochastic Resonance (ISR) is a phenomenon in which the average spiking rate of a neuron exhibits a minimum with respect to noise. ISR has been studied in individual neurons, but here, we investigate ISR in scale-free networks, where the average spiking rate is calculated over the neuronal population. We use Hodgkin-Huxley model neurons with channel noise (i.e., stochastic gating variable dynamics), and the network connectivity is implemented via electrical or chemical connections (i.e., gap junctions or excitatory/inhibitory synapses). We find that the emergence of ISR depends on the interplay between each neuron’s intrinsi . . .c dynamical structure, channel noise, and network inputs, where the latter in turn depend on network structure parameters. We observe that with weak gap junction or excitatory synaptic coupling, network heterogeneity and sparseness tend to favor the emergence of ISR. With inhibitory coupling, ISR is quite robust. We also identify dynamical mechanisms that underlie various features of this ISR behavior. Our results suggest possible ways of experimentally observing ISR in actual neuronal systems. © 2017 Uzuntarla et al Daha fazlası Daha az

Tığlı-Aydın, Rahime Seda | Kazancı, Füsun

Makale | 2018 | JAOCS, Journal of the American Oil Chemists' Society95 ( 11 ) , pp.1385 - 1398

In recent years, the use of ozonated oil (ozone enriched oil form) is being increasingly preferred for biomedical applications because of its antibacterial activity. Among most important reasons of this choice is the high molecular affinity of the ozone molecule and intracellular effects of the products of ozone and the unsaturated fatty-acid chemical reactions in cellular signaling systems. The aim of the present study was to synthesize and optimize the ozonated oil nanoemulsion system that would be transferred into the living systems easily, suggesting a promising carrier system for various biomedical applications. By varying form . . .ulation parameters (surfactant-to-oil ratio, surfactant concentration, mixing rate, and surfactant type), nanoemulsions were investigated in terms of mean particle diameters, distributions, and stabilities. Nanoemulsions with high stability and small droplet diameters (212.7 nm) could be produced under optimized conditions with Tween 40 as the surfactant at a 750 rpm mixing rate using the emulsion inversion point (EIP) low-energy method. Spherical and uniformly distributed nanoemulsions were observed by SEM, which also supports mean particle diameter measurements. Fourier-transform infrared spectroscopy (FTIR) and 13C NMR (nuclear magnetic resonance) studies indicated an ozonide structure within the nanoemulsion system, which remained even after 30 days of storage. The antibacterial activity of ozonated oil emulsions against Staphylococcus aureus and Escherichia coli suggests promising applications in the biomedical field. © 2018 AOC Daha fazlası Daha az

Uzuntarla, Muhammet | Yılmaz, Ergin | Wagemakers, Alexandre | Özer, Mahmut

Makale | 2015 | Communications in Nonlinear Science and Numerical Simulation22 ( 01.Mar ) , pp.367 - 374

Vibrational resonance (VR) is a phenomenon whereby the response of some dynamical systems to a weak low-frequency signal can be maximized with the assistance of an optimal intensity of another high-frequency signal. In this paper, we study the VR in a heterogeneous neural system having a complex network topology. We consider a scale-free network of neurons where the heterogeneity is in the intrinsic excitability of the individual neurons. It is shown that emergence of VR in heterogeneous neuron population requires less energy than a homogeneous population. We also find that electrical coupling strength among neurons plays a key role . . . in determining the weak signal processing capacity of the heterogeneous population. Lastly, we investigate the influence of interneuronal link density on the VR and demonstrate that the energy needed to obtain the resonance grows with the increase in average degree. © 2014 Elsevier B.V Daha fazlası Daha az

Yılmaz, Ergin

Makale | 2014 | Chaos, Solitons and Fractals66 , pp.1 - 8

We study the phenomenon of noise-delayed decay in a scale-free neural network consisting of excitable FitzHugh-Nagumo neurons. In contrast to earlier works, where only electrical synapses are considered among neurons, we primarily examine the effects of hybrid synapses on the noise-delayed decay in this study. We show that the electrical synaptic coupling is more impressive than the chemical coupling in determining the appearance time of the first-spike and more efficient on the mitigation of the delay time in the detection of a suprathreshold input signal. We obtain that hybrid networks including inhibitory chemical synapses have h . . .igher signal detection capabilities than those of including excitatory ones. We also find that average degree exhibits two different effects, which are strengthening and weakening the noise-delayed decay effect depending on the noise intensity. © 2014 Elsevier Ltd. All rights reserved Daha fazlası Daha az

Tığlı-Aydın, Rahime Seda | Hazer, Baki | Acar, Merve | Gümüşderelioğlu, Menemşe

Makale | 2013 | Polymer Bulletin70 ( 7 ) , pp.2065 - 2082

A novel biocompatible copolymer membrane was synthesized and characterized for use in guided bone regeneration using polymeric soybean oil-g-polystyrene (PSO-g-PS) graft copolymer which was successfully obtained by free radical polymerization of styrene initiated by PSO peroxide as a macroinitiator at 80 C. Osteoblastic cellular activities of MC3T3-E1 cells on PSO-g-PS membranes with different soybean oil composition (PSO-g-PS1, PSO-g-PS2, and PSO-g-PS3) were evaluated. Nuclear magnetic resonance (1H NMR) spectra showed that PSO inclusion (mol%) was found to be 27, 69, and 51 % for PSO-g-PS1, PSO-g-PS2, and PSO-g-PS3 membranes, resp . . .ectively. Superior biocompatibility of the PSO-g-PS membranes was determined compared to polystyrene tissue culture plates (TCPS) as positive control. Cell proliferation was enhanced on PSO-g-PS2 and PSO-g-PS3 membranes compared to PSO-g-PS1 membranes (p < 0.001), and a statistically significant higher ALP value of MC3T3-E1 cells on PSO-g-PS2 membranes (p < 0.05) suggested that proliferation and differentiation of preosteoblastic on PSO-g-PS membranes were enhanced with regard to soybean oil content within the membranes. Thus, the present study suggests that PSO-g-PS2 membranes, which showed a favorable biological environment for the preosteoblastic cells, can be well suited for bone tissue engineering applications. © 2013 Springer-Verlag Berlin Heidelberg Daha fazlası Daha az

Uzuntarla, Muhammet | Uzun, Rukiye | Yılmaz, Ergin | Özer, Mahmut | Perc, Matjaž

Makale | 2013 | Chaos, Solitons and Fractals56 , pp.202 - 208

Noise-delayed decay occurs when the first-spike latency of a periodically forced neuron exhibits a maximum at particular noise intensity. Here we investigate this phenomenon at the network level, in particular by considering scale-free neuronal networks, and under the realistic assumption of noise being due to the stochastic nature of voltage-gated ion channels that are embedded in the neuronal membranes. We show that noise-delayed decay can be observed at the network level, but only if the synaptic coupling strength between the neurons is weak. In case of strong coupling or in a highly interconnected population the phenomenon vanis . . .hes, thus indicating that delays in signal detection can no longer be resonantly prolonged by noise. We also find that potassium channel noise plays a more dominant role in the occurrence of noise-delayed decay than sodium channel noise, and that poisoning the neuronal membranes may weakens or intensify the phenomenon depending on targeting. © 2013 Elsevier Ltd. All rights reserved Daha fazlası Daha az

Baysal, Veli | Saraç, Zehra | Yılmaz, Ergin

Makale | 2019 | NONLINEAR DYNAMICS97 ( 2 ) , pp.1275 - 1285

Chaotic Resonance (CR), whereby the response of a nonlinear system to a weak signal can be enhanced by the assistance of chaotic activities that can be intrinsic or extrinsic, has recently been studied widely. In this paper, the effects of extrinsic chaotic signal on the weak signal detection performance of the Hodgkin-Huxley neuron are examined via numerical simulation. The chaotic signal has been derived from Lorenz system and is injected to neuron as a current. Obtained results have revealed that the H-H neuron exhibits CR phenomenon depending on the chaotic current intensity. Also, we have found an optimal chaotic current intens . . .ity ensuring the best detection of the weak signal in H-H neuron via CR. In addition, we have calculated the maximal Lyapunov exponent to determine whether the H-H neuron is in chaotic regime. After determining the state of the neuron, we have shown that the H-H neuron can be able to detect the weak signal even if it is in the chaotic regime. Finally, we have investigated the effects of chaotic activity on the collective behavior of H-H neurons in small-world networks and have concluded that CR effect is a robust phenomenon which can be observed both in single neurons and neuronal networks Daha fazlası Daha az

Uzuntarla, Muhammet | Özer, Mahmut | Guo D.Q.

Makale | 2012 | European Physical Journal B85 ( 8 ) , pp.1275 - 1285

Previous experimental and theoretical studies suggest that first-spike latency is an efficient information carrier and may contain more amounts of neural information than those of other spikes. Therefore, the biophysical mechanisms underlying the first-spike response latency are of considerable interest. Here we present a systematical investigation on the response latency dynamics of a single Hodgkin-Huxley neuron subject to both a suprathreshold periodic forcing and background activity. In contrast to most earlier works, we consider a biophysically realistic noise model which allows us to relate the synaptic background activity to . . .unreliable synapses and latency. Our results show that first-spike latency of a neuron can be regulated via unreliable synapses. An intermediate level of successful synaptic transmission probability significantly increases both the latency and its jitter, indicating that the unreliable synaptic transmission constrains the signal detection ability of neurons. Furthermore, we demonstrate that the destructive influence of synaptic unreliability can be controlled by the input regime and by the excitatory coupling strength. Better tuning of these two factors could help the H-H neuron encode information more accurately in terms of the first-spike latency. © 2012 EDP Sciences, Società Italiana di Fisica, Springer-Verlag Daha fazlası Daha az

Uzuntarla, Muhammet | Torres, Joaquin J. | So, Paul | Özer, Mahmut | Barreto, Ernest

Makale | 2017 | Physical Review E95 ( 1 ) , pp.1275 - 1285

We investigate the behavior of a model neuron that receives a biophysically realistic noisy postsynaptic current based on uncorrelated spiking activity from a large number of afferents. We show that, with static synapses, such noise can give rise to inverse stochastic resonance (ISR) as a function of the presynaptic firing rate. We compare this to the case with dynamic synapses that feature short-term synaptic plasticity and show that the interval of presynaptic firing rate over which ISR exists can be extended or diminished. We consider both short-term depression and facilitation. Interestingly, we find that a double inverse stocha . . .stic resonance (DISR), with two distinct wells centered at different presynaptic firing rates, can appear. © 2017 American Physical Society Daha fazlası Daha az

Uzuntarla, Muhammet

Makale | 2013 | Physics Letters, Section A: General, Atomic and Solid State Physics377 ( 38 ) , pp.2585 - 2589

Inverse stochastic resonance (ISR) is a recently pronounced phenomenon that is the minimum occurrence in mean firing rate of a rhythmically firing neuron as noise level varies. Here, by using a realistic modeling approach for the noise, we investigate the ISR with concrete biophysical mechanisms. It is shown that mean firing rate of a single neuron subjected to synaptic bombardment exhibits a minimum as the spike transmission probability varies. We also demonstrate that the occurrence of ISR strongly depends on the synaptic input regime, where it is most prominent in the balanced state of excitatory and inhibitory inputs. © 2013 Els . . .evier B.V Daha fazlası Daha az

Uzuntarla, Muhammet | Özer, Mahmut | İleri, Uğur | Çalım, Ali | Torres, Joaquin J.

Makale | 2015 | Physical Review E - Statistical, Nonlinear, and Soft Matter Physics92 ( 6 ) , pp.2585 - 2589

The noise-delayed decay (NDD) phenomenon emerges when the first-spike latency of a periodically forced stochastic neuron exhibits a maximum for a particular range of noise intensity. Here, we investigate the latency response dynamics of a single Hodgkin-Huxley neuron that is subject to both a suprathreshold periodic stimulus and a background activity arriving through dynamic synapses. We study the first-spike latency response as a function of the presynaptic firing rate f. This constitutes a more realistic scenario than previous works, since f provides a suitable biophysically realistic parameter to control the level of activity in . . .actual neural systems. We first report on the emergence of classical NDD behavior as a function of f for the limit of static synapses. Second, we show that when short-term depression and facilitation mechanisms are included at the synapses, different NDD features can be found due to their modulatory effect on synaptic current fluctuations. For example, an intriguing double NDD (DNDD) behavior occurs for different sets of relevant synaptic parameters. Moreover, depending on the balance between synaptic depression and synaptic facilitation, single NDD or DNDD can prevail, in such a way that synaptic facilitation favors the emergence of DNDD whereas synaptic depression favors the existence of single NDD. Here we report the existence of the DNDD effect in the response latency dynamics of a neuron. © 2015 American Physical Society Daha fazlası Daha az

Yılmaz, Ergin | Özer, Mahmut

Makale | 2013 | Physics Letters, Section A: General, Atomic and Solid State Physics377 ( 18 ) , pp.1301 - 1307

We consider a scale-free network of stochastic HH neurons driven by a subthreshold periodic stimulus and investigate how the collective spiking regularity or the collective temporal coherence changes with the stimulus frequency, the intrinsic noise (or the cell size), the network average degree and the coupling strength. We show that the best temporal coherence is obtained for a certain level of the intrinsic noise when the frequencies of the external stimulus and the subthreshold oscillations of the network elements match. We also find that the collective regularity exhibits a resonance-like behavior depending on both the coupling . . .strength and the network average degree at the optimal values of the stimulus frequency and the cell size, indicating that the best temporal coherence also requires an optimal coupling strength and an optimal average degree of the connectivity. © 2013 Elsevier B.V Daha fazlası Daha az

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