Dynamic Network Research Articles

4D dynamic spatial brain networks at rest linked to cognition show atypical variability and coupling in schizophrenia.

Despite increasing interest in the dynamics of functional brain networks, most studies focus on the changing relationships over time between spatially static networks or regions. Here we propose an approach to study dynamic spatial brain networks in human resting state functional magnetic resonance imaging (rsfMRI) data and evaluate the temporal changes in the volumes of these 4D networks. Our results show significant volumetric coupling (i.e., synchronized shrinkage and growth) between networks during the scan, that we refer to as dynamic spatial network connectivity (dSNC). We find that several features of such dynamic spatial brain networks are associated with cognition, with higher dynamic variability in these networks and higher volumetric coupling between network pairs positively associated with cognitive performance. We show that these networks are modulated differently in individuals with schizophrenia versus typical controls, resulting in network growth or shrinkage, as well as altered focus of activity within a network. Schizophrenia also shows lower spatial dynamical variability in several networks, and lower volumetric coupling between pairs of networks, thus upholding the role of dynamic spatial brain networks in cognitive impairment seen in schizophrenia. Our data show evidence for the importance of studying the typically overlooked voxel-wise changes within and between brain networks.

Disrupting glioblastoma networks with tumor treating fields (TTFields) in in vitro models.

This study investigates the biological effect of Tumor Treating Fields (TTFields) on key drivers of glioblastoma's malignancy-tumor microtube (TM) formation-and on the function and overall integrity of the tumor cell network. Using a two-dimensional monoculture GB cell network model (2DTM) of primary glioblastoma cell (GBC) cultures (S24, BG5 or T269), we evaluated the effects of TTFields on cell density, interconnectivity and structural integrity of the tumor network. We also analyzed calcium (Ca2+) transient dynamics and network morphology, validating findings in patient-derived tumoroids and brain tumor organoids. In the 2DTM assay, TTFields reduced cell density by 85-88% and disrupted network interconnectivity, particularly in cells with multiple TMs. A "crooked TM" phenotype emerged in 5-6% of treated cells, rarely seen in controls. Ca2+ transients were significantly compromised, with global Ca2+ activity reduced by 51-83%, active and periodic cells by over 50%, and intercellular co-activity by 52% in S24, and almost completely in BG5 GBCs. The effects were more pronounced at 200kHz compared to a 50kHz TTFields. Similar reductions in Ca2+ activity were observed in patient-derived tumoroids. In brain tumor organoids, TTFields significantly reduced tumor cell proliferation and infiltration. Our comprehensive study provides new insights into the multiple effects of Inovitro-modeled TTFields on glioma progression, morphology and network dynamics in vitro. Future in vivo studies to verify our in vitro findings may provide the basis for a deeper understanding and optimization of TTFields as a therapeutic modality in the treatment of GB.

Network Dynamics and Coopetition: Unraveling the Varied Impact of Indirect Ties

Network Dynamics and Coopetition: Unraveling the Varied Impact of Indirect Ties

Network Dynamics and Coopetition: Unraveling the Varied Impact of Indirect Ties

Network Dynamics and Coopetition: Unraveling the Varied Impact of Indirect Ties

The Impact of Proximity and Hierarchy on Network Dynamics: A Quasi-Experimental Field Study

The Impact of Proximity and Hierarchy on Network Dynamics: A Quasi-Experimental Field Study

The Impact of Proximity and Hierarchy on Network Dynamics: A Quasi-Experimental Field Study

The Impact of Proximity and Hierarchy on Network Dynamics: A Quasi-Experimental Field Study

Integrative Modeling of Signaling Network Dynamics Identifies Cell Type-selective Therapeutic Strategies for FGFR4-driven Cancers.

Oncogenic FGFR4 signaling represents a potential therapeutic target in various cancer types, including triple negative breast cancer (TNBC) and hepatocellular carcinoma (HCC). However, resistance to FGFR4 single-agent therapy remains a major challenge, emphasizing the need for effective combinatorial treatments. Our study sought to develop a comprehensive computational model of FGFR4 signaling and provide network-level insights into resistance mechanisms driven by signaling dynamics. An integrated approach, combining computational network modeling with experimental validation, uncovered potent AKT reactivation following FGFR4 targeting in TNBC cells. Analyzing the effects of co-targeting specific network nodes by systematically simulating the model predicted synergy of co-targeting FGFR4 and AKT or specific ErbB kinases, which was subsequently confirmed through experimental validation; however, co-targeting FGFR4 and PI3K was not synergistic. Protein expression data from hundreds of cancer cell lines was incorporated to adapt the model to diverse cellular contexts. This revealed that while AKT rebound was common, it was not a general phenomenon. For example, ERK reactivation occurred in certain cell types, including an FGFR4-driven HCC cell line, where there is a synergistic effect of co-targeting FGFR4 and MEK but not AKT. In summary, this study offers key insights into drug-induced network remodeling and the role of protein expression heterogeneity in targeted therapy responses. These findings underscore the utility of computational network modeling for designing cell type-selective combination therapies and enhancing precision cancer treatment.

Parent Firm Network Dynamics and Foreign Subsidiary Divestment

Parent Firm Network Dynamics and Foreign Subsidiary Divestment

DGCPPISP: a PPI site prediction model based on dynamic graph convolutional network and two-stage transfer learning

BackgroundProteins play a pivotal role in the diverse array of biological processes, making the precise prediction of protein–protein interaction (PPI) sites critical to numerous disciplines including biology, medicine and pharmacy. While deep learning methods have progressively been implemented for the prediction of PPI sites within proteins, the task of enhancing their predictive performance remains an arduous challenge.ResultsIn this paper, we propose a novel PPI site prediction model (DGCPPISP) based on a dynamic graph convolutional neural network and a two-stage transfer learning strategy. Initially, we implement the transfer learning from dual perspectives, namely feature input and model training that serve to supply efficacious prior knowledge for our model. Subsequently, we construct a network designed for the second stage of training, which is built on the foundation of dynamic graph convolution.ConclusionsTo evaluate its effectiveness, the performance of the DGCPPISP model is scrutinized using two benchmark datasets. The ensuing results demonstrate that DGCPPISP outshines competing methods in terms of performance. Specifically, DGCPPISP surpasses the second-best method, EGRET, by margins of 5.9%, 10.1%, and 13.3% for F1-measure, AUPRC, and MCC metrics respectively on Dset_186_72_PDB164. Similarly, on Dset_331, it eclipses the performance of the runner-up method, HN-PPISP, by 14.5%, 19.8%, and 29.9% respectively.

Image Captioning via Dynamic Path Customization.

This article explores a novel dynamic network for vision and language (V&L) tasks, where the inferring structure is customized on the fly for different inputs. Most previous state-of-the-art (SOTA) approaches are static and handcrafted networks, which not only heavily rely on expert knowledge but also ignore the semantic diversity of input samples, therefore resulting in suboptimal performance. To address these issues, we propose a novel Dynamic Transformer Network (DTNet) for image captioning, which dynamically assigns customized paths to different samples, leading to discriminative yet accurate captions. Specifically, to build a rich routing space and improve routing efficiency, we introduce five types of basic cells and group them into two separate routing spaces according to their operating domains, i.e., spatial and channel. Then, we design a Spatial-Channel Joint Router (SCJR), which endows the model with the capability of path customization based on both spatial and channel information of the input sample. To validate the effectiveness of our proposed DTNet, we conduct extensive experiments on the MS-COCO dataset and achieve new SOTA performance on both the Karpathy split and the online test server. The source code is publicly available at https://github.com/xmu-xiaoma666/DTNet.

AI Optimization-Based Heterogeneous Approach for Green Next-Generation Communication Systems

Traditional heterogeneous networks (HetNets) are constrained by their hardware design and configuration. These HetNets have a limited ability to adapt to variations in network dynamics. Software-defined radio technology has the potential to address this adaptability issue. In this paper, we introduce a software-defined radio (SDR)-based long-term evolution licensed assisted access (LTE-LAA) architecture for next-generation communication networks. We show that with proper design and tuning of the proposed architecture, high-level adaptability in HetNets becomes feasible with a higher throughput and lower power consumption. Firstly, maximizing the throughput and minimizing power consumption are formulated as a constrained optimization problem. Then, the obtained solution, alongside a heuristic solution, is compared against the solutions to existing approaches, showing our proposed strategy is drastically superior in terms of both power efficiency and system throughput. This study is then concluded by employing artificial intelligence techniques in multi-objective optimization, namely random forest regression, particle swarm, and genetic algorithms, to balance out the trade-offs between maximizing the throughput and power efficiency and minimizing energy consumption. These investigations demonstrate the potential of employing the proposed LTE-LAA architecture in addressing the requirements of next-generation HetNets in terms of power, throughput, and green scalability.

Numerical Exploration of a Network of Nonlocally Coupled Josephson Junction Spurred by Wien BridgeOscillators

This paper focuses on the numerical study of the collective dynamics of nonlocally coupled Josephson junctions (JJ) driven by Wien bridge oscillators (JJSWBOs). A single JJSWBO exhibits monostable and bistable chaotic behaviors, bistable period-3 oscillations, and a coexistence of regular and chaotic dynamics. To explore the network's collective dynamics, the local dynamics are set in a bistable regime, with initial conditions ensuring random distribution of units on these two types of behavior. Increasing the coupling strength transitions the network from complete incoherence to coherent traveling waves via a chimera state.

Simulation-based inference of developmental EEG maturation with the spectral graph model

The spectral content of macroscopic neural activity evolves throughout development, yet how this maturation relates to underlying brain network formation and dynamics remains unknown. Here, we assess the developmental maturation of electroencephalogram spectra via Bayesian model inversion of the spectral graph model, a parsimonious whole-brain model of spatiospectral neural activity derived from linearized neural field models coupled by the structural connectome. Simulation-based inference was used to estimate age-varying spectral graph model parameter posterior distributions from electroencephalogram spectra spanning the developmental period. This model-fitting approach accurately captures observed developmental electroencephalogram spectral maturation via a neurobiologically consistent progression of key neural parameters: long-range coupling, axonal conduction speed, and excitatory:inhibitory balance. These results suggest that the spectral maturation of macroscopic neural activity observed during typical development is supported by age-dependent functional adaptations in localized neural dynamics and their long-range coupling across the macroscopic structural network.

Harmony under threat: does resource-mediated stress affect the (caste-based) social network of leaf-cutting ant colonies?

Managing pest species of eusocial insects, such as leaf-cutting ants, poses significant challenges. Controlling them requires understanding of how toxic plant substrates and ant baits are recognized by foragers, transported to the nest, shared among workers and managed by gardeners cultivating the symbiont fungus garden. Despite this, little is known about how unsuitable resources might impact social interactions within ant colonies. This study aims to investigate whether the provision of a suitable substrate (copperleaf) and a toxic substrate (nasturtium leaves) affects the social network dynamics within colonies of two leaf-cutting ant species: Acromyrmex molestans and Acromyrmex subterraneus. The interactions between castes were recorded and subjected to social network analyses. Initial foraging duration increased for A. subterraneus provided with copperleaf, although no difference was observed for the other species and resource combinations. The social network structure was similar for both species when copperleaf leaves were provided as a substrate. However, notable alterations occurred with nasturtium leaf provision, leading to higher integration of gardeners in interactions and noticeable changes in the generalist worker network centrality, particularly in A. subterraneus. The observed changes in social interactions, particularly in A. subterraneus, suggest that increasing gardener interactions with other castes expedites the movement of the substrate within the colony. This maximizes the potential toxic effect on the colony. © 2024 Society of Chemical Industry.

Specific and Plastic: Chandelier Cell-to-Axon Initial Segment Connections in Shaping Functional Cortical Network.

Axon initial segment (AIS) is the most excitable subcellular domain of a neuron for action potential initiation. AISs of cortical projection neurons (PNs) receive GABAergic synaptic inputs primarily from chandelier cells (ChCs), which are believed to regulate action potential generation and modulate neuronal excitability. As individual ChCs often innervate hundreds of PNs, they may alter the activity of PN ensembles and even impact the entire neural network. During postnatal development or in response to changes in network activity, the AISs and axo-axonic synapses undergo dynamic structural and functional changes that underlie the wiring, refinement, and adaptation of cortical microcircuits. Here we briefly introduce the history of ChCs and review recent research advances employing modern genetic and molecular tools. Special attention will be attributed to the plasticity of the AIS and the ChC-PN connections, which play a pivotal role in shaping the dynamic network under both physiological and pathological conditions.

Using contact network dynamics to implement efficient interventions against pathogen spread in hospital settings: A modelling study.

Long-term care facilities (LTCFs) are hotspots for pathogen transmission. Infection control interventions are essential, but the high density and heterogeneity of interindividual contacts within LTCF may hinder their efficacy. Here, we explore how the patient-staff contact structure may inform effective intervention implementation. Using an individual-based model (IBM), we reproduced methicillin-resistant Staphylococcus aureus colonisation transmission dynamics over a detailed contact network recorded within a French LTCF of 327 patients and 263 staff over 3 months. Simulated baseline cumulative colonisation incidence was 21 patients (prediction interval: 11, 31) and 35 staff (prediction interval: 19, 54). We examined the potential impact of 3 types of interventions against transmission (reallocation reducing the number of unique contacts per staff, reinforced contact precautions, and hypothetical vaccination protecting against acquisition), targeted towards specific populations. All 3 interventions were effective when applied to all nurses or healthcare assistants (median reduction in MRSA colonisation incidence up to 35%), but the benefit did not exceed 8% when targeting any other single staff category. We identified "supercontactor" individuals with most contacts ("frequency-based," overrepresented among nurses, porters, and rehabilitation staff) or with the longest cumulative time spent in contact ("duration-based," overrepresented among healthcare assistants and patients in elderly care or persistent vegetative state (PVS)). Targeting supercontactors enhanced interventions against pathogen spread in the LTCF. With contact precautions, targeting frequency-based staff supercontactors led to the highest incidence reduction (20%, 95% CI: 19, 21). Vaccinating a mix of frequency- and duration-based staff supercontactors led to a higher reduction (23%, 95% CI: 22, 24) than all other approaches. Although based on data from a single LTCF, when varying epidemiological parameters to extend to other pathogens, our results suggest that targeting supercontactors is always the most effective strategy, indicating this approach could be applied to prevent transmission of other nosocomial pathogens. By characterising the contact structure in hospital settings and identifying the categories of staff and patients more likely to be supercontactors, with either more or longer contacts than others, interventions against nosocomial spread could be more effective. We find that the most efficient implementation strategy depends on the intervention (reallocation, contact precautions, vaccination) and target population (staff, patients, supercontactors). Importantly, both staff and patients may be supercontactors, highlighting the importance of including patients in measures to prevent pathogen transmission in LTCF.

Investigating the Effects of Transcranial Alternating Current Stimulation on Cortical Oscillations and Network Dynamics

Transcranial electrical brain stimulation techniques like transcranial direct current (tDCS) and transcranial alternating current (tACS) have emerged as potential tools for treating neurological diseases by modulating cortical excitability. These techniques deliver small electric currents to the brain non-invasively through electrodes on the scalp. tDCS uses constant direct current which weakly alters the membrane voltage of cortical neurons, while tACS utilizes alternating current to target and enhance cortical oscillations, though the underlying mechanisms are not fully understood more specifically. To elucidate how tACS perturbs endogenous network dynamics, we simulated spiking neuron network models. We identified distinct roles of the depolarizing and hyperpolarizing phases in driving network activity towards and away from the strong nonlinearity provided by pyramidal neurons. Exploring resonance effects, we found matching tACS frequency to the network’s endogenous resonance frequency creates greater entrainment. Based on this, we developed an algorithm to determine the network’s endogenous frequency, phase, and amplitude, then deliver optimized tACS to entrain network oscillations. Together, these computational results provide mechanistic insight into the effects of tACS on network dynamics and could inform future closed-loop tACS systems that dynamically tune stimulation parameters to ongoing brain activity.

Neuromodulatory Compensation of Cortical Neural Activity on Electrodeposited Pt/Ir Modified Microelectrode Arrays for Temperature Transients.

Temperature has a profound influence on various neuromodulation processes and has emerged as a focal point. However, the effects of acute environmental temperature fluctuations on cultured cortical networks have been inadequately elucidated. To bridge this gap, we have developed a brain-on-a-chip platform integrating cortical networks and electrodeposited Pt/Ir modified microelectrode arrays (MEAs) with 3D-printed bear-shaped triple chambers, facilitating control of temperature transients. This innovative system administers thermal stimuli while concurrently monitoring neuronal activity, including spikes and local field potentials, from 60 microelectrodes (diameter: 30 μm; impedance: 9.34 ± 1.37 kΩ; and phase delay: -45.26 ± 2.85°). Temperature transitions of approximately ±10 °C/s were applied to cortical networks on MEAs via in situ perfusion within the triple chambers. Subsequently, we examined the spatiotemporal dynamics of the brain-on-a-chip under temperature regulation at both the group level (neuronal population) and their interactions (network dynamics) and the individual level (cellular activity). Specifically, we found that after the temperature reduction neurons enhanced the overall information transmission efficiency of the network through synchronous firing to compensate for the decreased efficiency of single-cell level information transmission, in contrast to temperature elevation. By leveraging the integration of high-performance MEAs with perfusion chambers, this investigation provides a comprehensive understanding of the impact of temperature on the spatiotemporal dynamics of neural networks, thereby facilitating future exploration of the intricate interplay between temperature and brain function.

Enhanced lithium‐ion battery state‐of‐charge estimation for Electric Vehicles using the AOA‐DNN approach

AbstractElectric vehicles (EVs) battery management systems (BMSs) rely on exact state of charge (SoC) estimations to guarantee efficient and safe operation. Lithium‐ion batteries (LIBs) are favored for EVs due to their extended lifespan, high energy density, and minimal self‐discharge and high voltage. To address these issues, this research propose a LIB SoC prediction based on an actual BMS in EVs. The main objective is improving SoC of LIB. The proposed hybrid strategy is the combined performance of both the dynamic neural networks (DNN) and arithmetic optimization algorithm (AOA). Commonly it is named as DNN‐AOA technique. The SoC of Lithium‐ion batteries are predicted using the DNN approach. The proposed AOA is used to optimize the weight parameter of DNN to enhance prediction accuracy and reliability. By then, the operational MATLAB platform has adopted the proposed framework, and existing procedures are used to compute its execution. The proposed method demonstrates superior existing like Bayesian network (DBN), random vector functional link neural network (RVFLNN) and Gaussian progress regression (GPR). The proposed method yields a lower error value of 0.1 and a higher accuracy value of 98% compared with other existing methods.

Design of deep eutectic solvents for multiple perfluoroalkyl substances removal: Energy-based screening and mechanism elucidation

The current landscape of perfluoroalkyl substances (PFAS) extraction methodologies presents significant challenges, particularly for multiple PFAS with different carbon chain lengths. This study introduced an energy-driven strategic approach for screening deep eutectic solvents (DESs) to effectively remove a diverse range of PFAS, including perfluoroalkylcarboxylic acids (PFCAs), perfluoroalkanesulfonic acids (PFSAs), and perfluoroalkyl amides (FAAs), from contaminated environments (total 13 target compounds). Utilizing energy-based screening, we identified DES candidates with high affinity for a spectrum of PFAS compounds from 1234 potential starting materials of eutectic systems. Key findings revealed the superior removal efficiency of tributylphosphineoxide/2-methylpiperazine system, exceeding 99 % for various PFAS with different carbon chain lengths in real environmental water samples. Additionally, we elucidated the molecular interactions between DESs and PFAS through ab initio molecular dynamics (AIMD) simulations, providing valuable insights into the mechanisms governing the removal process. The mechanism of extraction involves hydrogen bond network topology and structural organization, with DESs capable of extracting PFAS while maintaining a weakly aggregated state of target molecules and minimizing the impact on the intrinsic structures of DES. The proposed system forms a dynamic, complementary, and flexible non-covalent interaction network structure with PFAS. The study advances the understanding of DES as a designable, effective, and sustainable alternative to conventional solvents for PFAS remediation, offering a significant contribution to environmental chemistry and green technology.