Journal of Biological Physics最新文献_第3页

Impact of noise on the instability of spiral waves in stochastic 2D mathematical models of human atrial fibrillation 噪声对人类心房颤动随机二维数学模型中螺旋波不稳定性的影响。

IF 1.8 4区生物学

Journal of Biological Physics Pub Date : 2023-10-04 DOI: 10.1007/s10867-023-09644-0

Euijun Song

{"title":"Impact of noise on the instability of spiral waves in stochastic 2D mathematical models of human atrial fibrillation","authors":"Euijun Song","doi":"10.1007/s10867-023-09644-0","DOIUrl":"10.1007/s10867-023-09644-0","url":null,"abstract":"<div>Sustained spiral waves, also known as rotors, are pivotal mechanisms in persistent atrial fibrillation (AF). Stochasticity is inevitable in nonlinear biological systems such as the heart; however, it is unclear how noise affects the instability of spiral waves in human AF. This study presents a stochastic two-dimensional mathematical model of human AF and explores how Gaussian white noise affects the instability of spiral waves. In homogeneous tissue models, Gaussian white noise may lead to spiral-wave meandering and wavefront break-up. As the noise intensity increases, the spatial dispersion of phase singularity (PS) points increases. This finding indicates the potential AF-protective effects of cardiac system stochasticity by destabilizing the rotors. By contrast, Gaussian white noise is unlikely to affect the spiral-wave instability in the presence of localized scar or fibrosis regions. The PS points are located at the boundary or inside the scar/fibrosis regions. Localized scar or fibrosis may play a pivotal role in stabilizing spiral waves regardless of the presence of noise. This study suggests that fibrosis and scars are essential for stabilizing the rotors in stochastic mathematical models of AF. Further patient-derived realistic modeling studies are required to confirm the role of scar/fibrosis in AF pathophysiology.</div>","PeriodicalId":612,"journal":{"name":"Journal of Biological Physics","volume":null,"pages":null},"PeriodicalIF":1.8,"publicationDate":"2023-10-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41105024","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Synchronization in STDP-driven memristive neural networks with time-varying topology 时变拓扑stdp驱动记忆神经网络的同步。

IF 1.8 4区生物学

Journal of Biological Physics Pub Date : 2023-09-01 DOI: 10.1007/s10867-023-09642-2

Marius E. Yamakou, Mathieu Desroches, Serafim Rodrigues

{"title":"Synchronization in STDP-driven memristive neural networks with time-varying topology","authors":"Marius E. Yamakou, Mathieu Desroches, Serafim Rodrigues","doi":"10.1007/s10867-023-09642-2","DOIUrl":"10.1007/s10867-023-09642-2","url":null,"abstract":"<div>Synchronization is a widespread phenomenon in the brain. Despite numerous studies, the specific parameter configurations of the synaptic network structure and learning rules needed to achieve robust and enduring synchronization in neurons driven by spike-timing-dependent plasticity (STDP) and temporal networks subject to homeostatic structural plasticity (HSP) rules remain unclear. Here, we bridge this gap by determining the configurations required to achieve high and stable degrees of complete synchronization (CS) and phase synchronization (PS) in time-varying small-world and random neural networks driven by STDP and HSP. In particular, we found that decreasing P (which enhances the strengthening effect of STDP on the average synaptic weight) and increasing F (which speeds up the swapping rate of synapses between neurons) always lead to higher and more stable degrees of CS and PS in small-world and random networks, provided that the network parameters such as the synaptic time delay (tau _c), the average degree (langle k rangle), and the rewiring probability (beta) have some appropriate values. When (tau _c), (langle k rangle), and (beta) are not fixed at these appropriate values, the degree and stability of CS and PS may increase or decrease when F increases, depending on the network topology. It is also found that the time delay (tau _c) can induce intermittent CS and PS whose occurrence is independent F. Our results could have applications in designing neuromorphic circuits for optimal information processing and transmission via synchronization phenomena.</div>","PeriodicalId":612,"journal":{"name":"Journal of Biological Physics","volume":null,"pages":null},"PeriodicalIF":1.8,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s10867-023-09642-2.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10130496","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Suppression of beta oscillations by delayed feedback in a cortex-basal ganglia-thalamus-pedunculopontine nucleus neural loop model 在皮质-基底神经节-丘脑-桥脚核神经环模型中延迟反馈抑制β振荡。

IF 1.8 4区生物学

Journal of Biological Physics Pub Date : 2023-08-12 DOI: 10.1007/s10867-023-09641-3

Yuqin Sun, Jiali Lü, Ye Zhou, Yingpeng Liu, Yuan Chai

{"title":"Suppression of beta oscillations by delayed feedback in a cortex-basal ganglia-thalamus-pedunculopontine nucleus neural loop model","authors":"Yuqin Sun, Jiali Lü, Ye Zhou, Yingpeng Liu, Yuan Chai","doi":"10.1007/s10867-023-09641-3","DOIUrl":"10.1007/s10867-023-09641-3","url":null,"abstract":"<div>Excessive neural synchronization of neural populations in the beta (β) frequency range (12–35 Hz) is intimately related to the symptoms of hypokinesia in Parkinson’s disease (PD). Studies have shown that delayed feedback stimulation strategies can interrupt excessive neural synchronization and effectively alleviate symptoms associated with PD dyskinesia. Work on optimizing delayed feedback algorithms continues to progress, yet it remains challenging to further improve the inhibitory effect with reduced energy expenditure. Therefore, we first established a neural mass model of the cortex-basal ganglia-thalamus-pedunculopontine nucleus (CBGTh-PPN) closed-loop system, which can reflect the internal properties of cortical and basal ganglia neurons and their intrinsic connections with thalamic and pedunculopontine nucleus neurons. Second, the inhibitory effects of three delayed feedback schemes based on the external globus pallidum (GPe) on β oscillations were investigated separately and compared with those based on the subthalamic nucleus (STN) only. Our results show that all four delayed feedback schemes achieve effective suppression of pathological β oscillations when using the linear delayed feedback algorithm. The comparison revealed that the three GPe-based delayed feedback stimulation strategies were able to have a greater range of oscillation suppression with reduced energy consumption, thus improving control performance effectively, suggesting that they may be more effective for the relief of Parkinson’s motor symptoms in practical applications.</div>","PeriodicalId":612,"journal":{"name":"Journal of Biological Physics","volume":null,"pages":null},"PeriodicalIF":1.8,"publicationDate":"2023-08-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10035827","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Thermal transport across membranes and the Kapitza length from photothermal microscopy 光热显微镜下膜间的热传递和Kapitza长度

IF 1.8 4区生物学

Journal of Biological Physics Pub Date : 2023-07-21 DOI: 10.1007/s10867-023-09636-0

Panagis D. Samolis, Michelle Y. Sander, Mi K. Hong, Shyamsunder Erramilli, Onuttom Narayan

{"title":"Thermal transport across membranes and the Kapitza length from photothermal microscopy","authors":"Panagis D. Samolis, Michelle Y. Sander, Mi K. Hong, Shyamsunder Erramilli, Onuttom Narayan","doi":"10.1007/s10867-023-09636-0","DOIUrl":"10.1007/s10867-023-09636-0","url":null,"abstract":"<div>An analytical model is presented for light scattering associated with heat transport near a cell membrane that divides a complex system into two topologically distinct half-spaces. Our analysis is motivated by experiments on vibrational photothermal microscopy which have not only demonstrated remarkably high contrast and resolution, but also are capable of providing label-free local information of heat transport in complex morphologies. In the first Born approximation, the derived Green’s function leads to the reconstruction of a full 3D image with photothermal contrast obtained using both amplitude and phase detection of periodic excitations. We show that important fundamental parameters including the Kapitza length and Kapitza resistance can be derived from experiments. Our goal is to spur additional experimental studies with high-frequency modulation and heterodyne detection in order to make contact with recent theoretical molecular dynamics calculations of thermal transport properties in membrane systems.\u0000</div>","PeriodicalId":612,"journal":{"name":"Journal of Biological Physics","volume":null,"pages":null},"PeriodicalIF":1.8,"publicationDate":"2023-07-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s10867-023-09636-0.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"4822524","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Identifying key factors in cell fate decisions by machine learning interpretable strategies 通过机器学习可解释策略识别细胞命运决策中的关键因素。

IF 1.8 4区生物学

Journal of Biological Physics Pub Date : 2023-07-17 DOI: 10.1007/s10867-023-09640-4

Xinyu He, Ruoyu Tang, Jie Lou, Ruiqi Wang

引用次数: 0

Numerical simulation of calcium dynamics dependent ATP degradation, IP3 and NADH production due to obesity in a hepatocyte cell 肝细胞肥胖引起的钙动力学依赖性ATP降解、IP3和NADH产生的数值模拟。

IF 1.8 4区生物学

Journal of Biological Physics Pub Date : 2023-07-06 DOI: 10.1007/s10867-023-09639-x

Vedika Mishra, Neeru Adlakha

{"title":"Numerical simulation of calcium dynamics dependent ATP degradation, IP3 and NADH production due to obesity in a hepatocyte cell","authors":"Vedika Mishra, Neeru Adlakha","doi":"10.1007/s10867-023-09639-x","DOIUrl":"10.1007/s10867-023-09639-x","url":null,"abstract":"<div>Calcium (Ca({}^{2+})) signals have a crucial role in regulating various processes of almost every cell to maintain its structure and function. Calcium dynamics has been studied in various cells including hepatocytes by many researchers, but the mechanisms of calcium signals involved in regulation and dysregulation of various processes like ATP degradation rate, IP(_{3}) and NADH production rate respectively in normal and obese cells are still poorly understood. In this paper, a reaction diffusion equation of calcium is employed to propose a model of calcium dynamics by coupling ATP degradation rate, IP(_{3}) and NADH production rate in hepatocyte cells under normal and obese conditions. The processes like source influx, buffer, endoplasmic reticulum (ER), mitochondrial calcium uniporters (MCU) and Na(^{+})/Ca(^{2+}) exchanger (NCX) have been incorporated in the model. Linear finite element method is used along spatial dimension, and Crank-Nicolson method is used along temporal dimension for numerical simulation. The results have been obtained for the normal hepatocyte cells and for cells due to obesity. The comparative study of these results reveal significant difference caused due to obesity in Ca(^{2+}) dynamics as well as in ATP degradation rate, IP(_{3}) and NADH production rate.</div>","PeriodicalId":612,"journal":{"name":"Journal of Biological Physics","volume":null,"pages":null},"PeriodicalIF":1.8,"publicationDate":"2023-07-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10114912","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

Analysis of SARS-CoV-2 interactions with the Vero cell lines by scanning electron microscopy 扫描电镜分析SARS-CoV-2与Vero细胞系的相互作用

IF 1.8 4区生物学

Journal of Biological Physics Pub Date : 2023-06-30 DOI: 10.1007/s10867-023-09638-y

Zuzana Malá, Marek Vojta, Jan Loskot, Radek Sleha, Bruno Ježek, Josef Zelenka

引用次数: 0

Correction to: In‑phase and anti‑phase bursting dynamics and synchronisation scenario in neural network by varying coupling phase 修正:改变耦合相位的神经网络的同相和反相爆破动力学和同步场景

IF 1.8 4区生物学

Journal of Biological Physics Pub Date : 2023-06-14 DOI: 10.1007/s10867-023-09637-z

Thazhathethil Remi, Pallimanhiyil Abdulraheem Subha

引用次数: 0

In-phase and anti-phase bursting dynamics and synchronisation scenario in neural network by varying coupling phase 不同耦合相位下神经网络的同相和反相爆破动力学及同步场景

IF 1.8 4区生物学

Journal of Biological Physics Pub Date : 2023-05-17 DOI: 10.1007/s10867-023-09635-1

Thazhathethil Remi, Pallimanhiyil Abdulraheem Subha

{"title":"In-phase and anti-phase bursting dynamics and synchronisation scenario in neural network by varying coupling phase","authors":"Thazhathethil Remi, Pallimanhiyil Abdulraheem Subha","doi":"10.1007/s10867-023-09635-1","DOIUrl":"10.1007/s10867-023-09635-1","url":null,"abstract":"<div>We have analysed the synchronisation scenario and the rich spatiotemporal patterns in the network of Hindmarsh-Rose neurons under the influence of self, mixed and cross coupling of state variables which are realised by varying coupling phase. We have introduced a coupling matrix in the model to vary coupling phase. The excitatory and inhibitory couplings in the membrane potential induce in-phase and anti-phase bursting dynamics, respectively, in the two coupled system. When the off-diagonal elements of the matrix are zero, the system shows self coupling of the three variables, which helps to attain synchrony. The off-diagonal elements give cross interactions between the variables, which reduces synchrony. The stability of the synchrony attained is analysed using Lyapunov function approach. In our study, we found that self coupling in three variables is sufficient to induce chimera states in non-local coupling. The strength of incoherence and discontinuity measure validates the existence of chimera and multichimera states. The inhibitor self coupling in local interaction induces interesting patterns like Mixed Oscillatory State and clusters. The results may help in understanding the spatiotemporal communications of the brain, within the limitations of the size of the network analysed in this study.</div>","PeriodicalId":612,"journal":{"name":"Journal of Biological Physics","volume":null,"pages":null},"PeriodicalIF":1.8,"publicationDate":"2023-05-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s10867-023-09635-1.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"4986367","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

Modified diffusive epidemic process on Apollonian networks 阿波罗网络上改进的扩散流行病过程

IF 1.8 4区生物学

Journal of Biological Physics Pub Date : 2023-04-29 DOI: 10.1007/s10867-023-09634-2

David Alencar, Antonio Filho, Tayroni Alves, Gladstone Alves, Ronan Ferreira, Francisco Lima

{"title":"Modified diffusive epidemic process on Apollonian networks","authors":"David Alencar, Antonio Filho, Tayroni Alves, Gladstone Alves, Ronan Ferreira, Francisco Lima","doi":"10.1007/s10867-023-09634-2","DOIUrl":"10.1007/s10867-023-09634-2","url":null,"abstract":"<div>We present an analysis of an epidemic spreading process on an Apollonian network that can describe an epidemic spreading in a non-sedentary population. We studied the modified diffusive epidemic process using the Monte Carlo method by computational analysis. Our model may be helpful for modeling systems closer to reality consisting of two classes of individuals: susceptible (A) and infected (B). The individuals can diffuse in a network according to constant diffusion rates (D_{A}) and (D_{B}), for the classes A and B, respectively, and obeying three diffusive regimes, i.e., (D_{A}<D_{B}), (D_{A}=D_{B}), and (D_{A}>D_{B}). Into the same site i, the reaction occurs according to the dynamical rule based on Gillespie’s algorithm. Finite-size scaling analysis has shown that our model exhibits continuous phase transition to an absorbing state with a set of critical exponents given by (beta /nu =0.66(1)), (1/nu =0.46(2)), and (gamma '/nu =-0.24(2)) familiar to every investigated regime. In summary, the continuous phase transition, characterized by this set of critical exponents, does not have the same exponents of the mean-field universality class in both regular lattices and complex networks.</div>","PeriodicalId":612,"journal":{"name":"Journal of Biological Physics","volume":null,"pages":null},"PeriodicalIF":1.8,"publicationDate":"2023-04-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s10867-023-09634-2.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"5105003","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0