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At least 811 records · Page 45

Belowground cross-trophic networks impact CH4 and CO2 emissions in degraded alpine peatlands

Belowground organisms forming complex cross-trophic ecological networks are essential for maintaining peatland carbon stability and energy flow. However, how peatland degradation affects the biodiversity and cross-trophic ecological networks of soil communities remains poorly understood. Here, we examined the degradation effects on soil prokaryotes (i.e., bacteria, archaea), fungi and nematodes in alpine peatlands on the eastern Tibetan Plateau, characterized by varying water table depths (indicating degradation levels). We found that peatland degradation, accompanied by significant shifts in soil moisture and pH (P < 0.05), reduced the taxonomic richness and phylogenetic diversity of prokaryotes, fungi, and nematodes, particularly in deeper soil layers (20–50 cm). Crucially, peatland degradation weakened potential cross-trophic interactions within bipartite networks of prokaryotes-nematodes and fungi-nematodes, resulting in less than 6.5 %–28.8 % of unchanged modules. Degradation-induced changes in soil moisture and pH were identified as primary drivers of biodiversity loss and network restructuring. Furthermore, such changes of belowground cross-trophic networks (particularly prokaryote-nematode) were significantly correlated with greenhouse gas emissions, such as decreased CO2 emissions, maintained CH4 emissions (leading to a higher CH4/CO2 ratio in deep layers), and reduced temperature sensitivity (Q10) of soil respiration. These findings underscore the critical need to protect soil biodiversity and cross-trophic networks in peatlands, particularly under the threat of climate change, to preserve peatland carbon stocks and maintain ecosystem stability. Our findings highlight that belowground cross-trophic networks are pivotal to decipher soil carbon dynamics of degraded peatlands and project the fate of peatland carbon stocks under future climate change scenarios.

Cross-trophic networks↗

Topology-Informed Design Rules for Deconstructable Thermoset Copolymer Networks

Existing models of thermoset deconstruction facilitated by incorporating cleavable comonomers rely on a mean-field reverse gel point paradigm, which predicts network dissolution once cleavable bonds reach a critical stoichiometric threshold, but does not account for where those bonds reside within the network architecture. Using reactive coarse-grained molecular dynamics simulations coupled with graph-theoretic analysis, we extend this stoichiometric picture to show that deconstructability is governed by the curing-imprinted network topology rather than stoichiometry alone. This topological organization is hierarchical: at the local scale, the elastic effectiveness of cross-link junctions determines which cross-links constitute the load-bearing scaffold; at the mesoscale, the cross-linking rate kinetically templates that scaffold into topologically modular communities─densely cross-linked clusters connected by sparse bridging strands that sustain network connectivity. Using betweenness centrality to identify nodes that disproportionately lie on intercommunity shortest paths, we demonstrate that effective deconstruction of the network into macromolecular fragments requires cleavable comonomers to intercept these high-centrality bridging strands. We further find that under uniform, disassortative comonomer incorporation, this topological requirement provides a mechanistic basis for extending the reverse gel point to incorporate network topology. We also show that modularity imposes a fundamental limit on fragment uniformity that persists even when the centrality requirement is met. Finally, we demonstrate that chain stiffness provides a nearly independent lever to suppress mechanically redundant cross-links and raise the glass transition temperature without significantly altering the deconstruction outcome. Together, these findings reframe the thermoset design space around network topology and provide actionable guidelines for engineering thermoset copolymers with predictable deconstructability and targeted thermomechanical performance.

coarse-grained molecular dynamics↗

Assessing heat resilience coordination in networks of plans

Networks of plans coordinating on hazard mitigation can limit losses. We offer a novel network analysis methodology to investigate how networks of plans explicitly coordinate, and the purpose and nature of coordination. We illustrate the method using networks of plans shaping heat resilience in seven Arizona cities. The network analysis can help planners to identify influential plans that need to be high quality, peripheral plans, and potential governance silos. Furthermore, investigation into plan roles offers an ontological lens into how plans network, consult, and share information. The nature of coordination varies by purpose. General plans are cited for goals, while hazard mitigation plans are referenced for heat fact base. Transportation plans cite goals and fact base in other transportation plans, but rarely cite other plan types. Furthermore, these findings will help planners to consider the roles and merits of different plans while integrating hazards across the next generation of networks of plans.

coordination↗

Microscopic Imprints of Learned Solutions in Tunable Networks

In physical networks trained using supervised learning, physical parameters are adjusted to produce desired responses to inputs. An example is an electrical contrastive local learning network of nodes connected by edges that adjust their conductances during training. When an edge conductance changes, it upsets the current balance of every node. In response, physics adjusts the node voltages to minimize the dissipated power. Learning in these systems is therefore a coupled double-optimization process, in which the network descends both a cost landscape in the high-dimensional space of edge conductances and a physical landscape—the power dissipation—in the high-dimensional space of node voltages. Because of this coupling, the physical landscape of a trained network contains information about the learned task. Here, we derive a structure-function relation for trained tunable networks and demonstrate that all the physical information relevant to the trained input-output relation can be captured by a tuning susceptibility, an experimentally measurable quantity. We supplement our theoretical results with simulations to show that the tuning susceptibility is correlated with functional importance and that we can extract physical insight into how the system performs the task from the conductances of highly susceptible edges. Our analysis is general and can be applied directly to mechanical networks, such as networks trained for protein-inspired function such as allostery.

36 MATERIALS SCIENCE↗

Link Scheduling in Satellite Networks via Machine Learning Over Riemannian Manifolds

Low Earth Orbit (LEO) satellites play a crucial role in enhancing global connectivity, serving a complementary solution to existing terrestrial systems. In wireless networks, scheduling is a vital process that allocates time-frequency resources to users for interference management. However, LEO satellite networks face significant challenges in scheduling their links towards ground users due to the satellites’ mobility and overlapping coverage. This paper addresses the dynamic link scheduling problem in LEO satellite networks by considering spatio-temporal correlations introduced by the satellites’ movements. The first step in the proposed solution involves modeling the network over Riemannian manifolds, thanks to their representation as symmetric positive definite matrices. We introduce two machine learning (ML)-based link scheduling techniques that model the dynamic evolution of satellite positions and link conditions over time and space. To accurately predict satellite link states, we present a recurrent neural network (RNN) over Riemannian manifolds, which captures spatio-temporal characteristics over time. Furthermore, we introduce a separate model, the convolutional neural network (CNN) over Riemannian manifolds, which captures geometric relationships between satellites and users by extracting spatial features from the network topology across all links. Simulation results demonstrate that both RNN and CNN over Riemannian manifolds deliver comparable performance to the fractional programming-based link scheduling (FPLinQ) benchmark. Remarkably, unlike other ML-based models that require extensive training data, both models only need 30 training samples to achieve over 99% of the sum rate while maintaining similar computational complexity relative to the benchmark.

42 ENGINEERING↗

Quantum Networks for Resilient Power Grids: Theory and Simulated Evaluation

Quantum networks are considered the future of secure communication in the coming quantum era. Yet there lack significant efforts on developing practical quantum networks for power grids. Here, in this paper, we establish a quantum network-based power grid (QNetGrid) framework and develops a real-time, reliable, flexible, programmable, and cost-effective QNetGrid software testbed containing repeater-based quantum communication, quantum routing, real software-defined networking (SDN) switches, and real-time networked microgrids (NMs) operations. It makes the following contributions: 1) a repeater and routing based quantum network simulator (QNSim) is developed, 2) repeaters with and without quantum memories are respectively simulated in QNSim, 3) different routing scenarios in QNetGrid are investigated, 4) a real-time QNetGrid software testbed is built in RTDS incorporating QNSim and real SDN switches, and 5) various test cases are designed, and experimental results produced with the QNetGrid testbed provide valuable insights for building quantum networks in power grids.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Modeling Large-Scale Slim Fly Networks Using Parallel Discrete-Event Simulation

As supercomputers approach exascale performance, the increased number of processors translates to an increased demand on the underlying network interconnect. We present that the slim fly network topology, a new low-diameter, low-latency, and low-cost interconnection network, is gaining interest as one possible solution for next-generation supercomputing interconnect systems. In this article, we present a high-fidelity slim fly packet-level model leveraging the Rensselaer Optimistic Simulation System (ROSS) and Co-Design of Exascale Storage (CODES) frameworks. We validate the model with published work before scaling the network size up to an unprecedented 1 million compute nodes and confirming that the slim fly observes peak network throughput at extreme scale. In addition to synthetic workloads, we evaluate large-scale slim fly models with real communication workloads from applications in the Design Forward program with over 110,000 MPI processes. We show strong scaling of the slim fly model on an Intel cluster achieving a peak network packet transfer rate of 2.3 million packets per second and processing over 7 billion discrete events using 128 MPI tasks. Enabled by the strong performance capabilities of the model, we perform a detailed application trace and routing protocol performance study. Lastly, through analysis of metrics such as packet latency, hop count, and congestion, we find that the slim fly network is able to leverage simple minimal routing and achieve the same performance as more complex adaptive routing for tested DOE benchmark applications.

97 MATHEMATICS AND COMPUTING↗

Community Fabric: Visualizing communities and structure in dynamic networks

We present Community Fabric, a novel visualization technique for simultaneously visualizing communities and structure within dynamic networks. In dynamic networks, the structure of the network is continuously evolving throughout time and these underlying topological shifts tend to lead to communal changes. Community Fabric helps the viewer more easily interpret and understand the interplay of structural change and community evolution in dynamic graphs. To achieve this, we take a new approach, hybridizing two popular network and community visualizations. Community Fabric combines the likes of the Biofabric static network visualization method with traditional community alluvial flow diagrams to visualize communities in a dynamic network while also displaying the underlying network structure. Our approach improves upon existing state-of-the-art techniques in several key areas. We describe the methodologies of Community Fabric, implement the visualization using modern web-based tools, and apply our approach to three example data sets.

99 GENERAL AND MISCELLANEOUS↗

OptRAM: In-silico strain design via integrative regulatory-metabolic network modeling

The ultimate goal of metabolic engineering is to produce desired compounds on an industrial scale in a cost effective manner. To address challenges in metabolic engineering, computational strain optimization algorithms based on genome-scale metabolic models have increasingly been used to aid in overproducing products of interest. However, most of these strain optimization algorithms utilize a metabolic network alone, with few approaches providing strategies that also include transcriptional regulation. Moreover previous integrated approaches generally require a pre-existing regulatory network. In this study, we developed a novel strain design algorithm, named OptRAM (Optimization of Regulatory And Metabolic Networks), which can identify combinatorial optimization strategies including overexpression, knockdown or knockout of both metabolic genes and transcription factors. OptRAM is based on our previous IDREAM integrated network framework, which makes it able to deduce a regulatory network from data. OptRAM uses simulated annealing with a novel objective function, which can ensure a favorable coupling between desired chemical and cell growth. The other advance we propose is a systematic evaluation metric of multiple solutions, by considering the essential genes, flux variation, and engineering manipulation cost. We applied OptRAM to generate strain designs for succinate, 2,3-butanediol, and ethanol overproduction in yeast, which predicted high minimum predicted target production rate compared with other methods and previous literature values. Moreover, most of the genes and TFs proposed to be altered by OptRAM in these scenarios have been validated by modification of the exact genes or the target genes regulated by the TFs, for overproduction of these desired compounds by in vivo experiments cataloged in the LASER database. Particularly, we successfully validated the predicted strain optimization strategy for ethanol production by fermentation experiment. As a result, OptRAM can provide a useful approach that leverages an integrated transcriptional regulatory network and metabolic network to guide metabolic engineering applications.

59 BASIC BIOLOGICAL SCIENCES↗

Upsampling Monte Carlo Reactor Simulation Tallies in Depleted Sodium-Cooled Fast Reactor Assemblies Using a Convolutional Neural Network

The computational demand of neutron Monte Carlo transport simulations can increase rapidly with the spatial and energy resolution of tallied physical quantities. Convolutional neural networks have been used to increase the resolution of Monte Carlo simulations of light water reactor assemblies while preserving accuracy with negligible additional computational cost. Here, we show that a convolutional neural network can also be used to upsample tally results from Monte Carlo simulations of sodium-cooled fast reactor assemblies, thereby extending the applicability beyond thermal systems. The convolutional neural network model is trained using neutron flux tallies from 300 procedurally generated nuclear reactor assemblies simulated using OpenMC. Validation and test datasets included 16 simulations of procedurally generated assemblies, and a realistic simulation of a European sodium-cooled fast reactor assembly was included in the test dataset. We show the residuals between the high-resolution flux tallies predicted by the neural network and high-resolution Monte Carlo tallies on relative and absolute bases. The network can upsample tallies from simulations of fast reactor assemblies with diverse and heterogeneous materials and geometries by a factor of two in each spatial and energy dimension. The network’s predictions are within the statistical uncertainty of the Monte Carlo tallies in almost all cases. This includes test assemblies for which burnup values and geometric parameters were well outside the ranges of those in assemblies used to train the network.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

Efficient Network Partitioning: Application for Decentralized State Estimation in Power Distribution Grids: Preprint

Increase in the proliferation of DERs requires real-time situational awareness for efficient grid operations. State estimation plays an important role for real time control and management of the power grid. As the sensing infrastructure grows, aggregating and handling high volumes of data at a centralized location is extremely difficult. To address this challenge, this paper first proposes a novel and efficient hierarchical spectral clustering-based network partition algorithm followed by a decentralized compressive sensing (DCS) based state estimation. The applicability of the proposed network partitioning algorithm is tested on IEEE-123 bus, IEEE-8500 node, and a 6204-node distribution network. The results shows that the proposed approach efficiently divides the network into multiple sub-networks with the minimum edge connections among the neighbors. Then, we perform DCS-based state estimation on the 6204-node distribution network after dividing the network into 18 optimal partitions. Simulation results show that DCS-based state estimation recovers the system states with high accuracy and low complexity.

ADMM↗

Evolution of high-temperature molecular relaxations in poly(2-(2-methoxyethoxy)ethyl methacrylate) upon network formation

Copolymers of 2-(2-methoxyethoxy)ethyl methacrylate (poly(MEO 2 MA)) are regarded as bioinert replacements of poly(N-isopropylacrylamide) in some biomedical applications. Networks of poly(MEO 2 MA) of various architecture form thermo-responsive hydrogels. Here, we present dielectric and mechanical spectroscopy studies on segmental motions and network relaxation processes in linear poly(MEO 2 MA) and its networks — bare network and the network grafted with short poly(MEO 2 MA) chains. We show that the α process assigned to the segmental motions of poly(MEO 2 MA) is independent on the polymer topology and the glass transition temperature, T g , associated with this process equals 235–236 K for all investigated systems. The α' relaxation observed above T g by dynamical mechanical analysis is assigned to the sub-Rouse process. It strongly depends on the polymer network architecture and slows down by four orders of magnitude upon network formation.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Machine learning for graph-based representations of three-dimensional discrete fracture networks

Structural and topological information play a key role in modeling flow and transport through fractured rock in the subsurface. Discrete fracture network (DFN) computational suites such as dfnWorks (Hyman et al. Comput. Geosci. 84, 10–19 2015) are designed to simulate flow and transport in such porous media. Flow and transport calculations reveal that a small backbone of fractures exists, where most flow and transport occurs. Restricting the flowing fracture network to this backbone provides a significant reduction in the network’s effective size. However, the particle-tracking simulations needed to determine this reduction are computationally intensive. Such methods may be impractical for large systems or for robust uncertainty quantification of fracture networks, where thousands of forward simulations are needed to bound system behavior. In this paper, we develop an alternative network reduction approach to characterizing transport in DFNs, by combining graph theoretical and machine learning methods. We consider a graph representation where nodes signify fractures and edges denote their intersections. Using random forest and support vector machines, we rapidly identify a subnetwork that captures the flow patterns of the full DFN, based primarily on node centrality features in the graph. Our supervised learning techniques train on particle-tracking backbone paths found by dfnWorks, but run in negligible time compared to those simulations. In conclusion, we find that our predictions can reduce the network to approximately 20% of its original size, while still generating breakthrough curves consistent with those of the original network.

97 MATHEMATICS AND COMPUTING↗

A mathematical discussion concerning the performance of multilayer perceptron-type artificial neural networks through use of orthogonal bipolar vectors

This work proposes the use of orthogonal bipolar vectors (OBV) as targets for multilayer perceptron (MLP) Artificial neural networks pertaining to the pattern recognition field. Implications involving this proposal are supported by a proper mathematical discussion. This study shows that the use of OBV as targets improves the class identification performance of MLP networks for pattern recognition with more than two classes when compared to the widely used conventional target bipolar vector (CBV). In addition to the overall performance improvement, it is possible to obtain high recognition rates with fewer training epochs, while keeping a feasible generalization with other data. This behavior is related to the Euclidean distance of the points in the output space, which is much higher in the case of OBVs. Therefore, with a greater distance between the points in the output space, the MLP network becomes less prone to associate trained outputs with incorrect targets. The mathematical discussion in this study is based on the backpropagation training algorithm. In addition to the mathematical discussion, results from experiments with real data are presented. These results follow those obtained by mathematical derivations. Real data sets used in the experiments are available from: (a) the Semeion Handwritten Digit of Machine Learning Repository, international repository; (b) Iris Image Database from the Chinese Academy of Sciences—CASIA; (c) Australian Sign Language, signs of Machine Learning Repository, international repository. Experiments were conducted to measure the mean Euclidean distance between the MLP network output subjected to a given input pattern and outputs related to other pattern classifications. Experimental results show that MLP networks trained with OBVs were able to ensure a Euclidean distance between the output and incorrect targets greater than MLP networks trained with CBVs (by up to 4 times for handwritten, by up to 12 times for iris images and by up to 10 times for Auslan signs language). As such, the adoption of OBVs as target vectors for MLPs reduces the computational effort for training the network.

97 MATHEMATICS AND COMPUTING↗

Intermolecular Network Theory:A General Approach for Understanding the Structural and Dynamic Properties of Liquids and Solutions

Graph theory applications within the physical sciences have a long history. However, it has never moved to the forefront of analytical techniques employed by the computational chemistry community. Though much of the earliest work leveraged percolation theory as a backdrop for understanding critical phenomena and phase transitions within statistical mechanical simulations, modern data science has much to contribute. Here in this paper, we focus on the realm of intermolecular networks, where vertices represent molecules or particles, and an edge represents an intermolecular or interparticle interaction. These interactions are widely understood to dictate many of the physical properties of soft matter, and for liquids in particular, understanding this network is essential. Consider the sheer volume of ~70 years of literature associated with the hydrogen bond network of water, a topic that remains an active area of research even today. The aim of this work is twofold: first, to put into context prior algorithms and analyses that employed “connectedness theory” or lattice-based models to understand the intermolecular networks of chemical systems; and second to discuss a more general strategy for analyzing the multiscale structural and dynamic properties of chemical systems—intermolecular network theory. This approach encompasses foundational methods such as percolation theory, but also utilizes contemporary graph theoretical analyses that have evolved alongside the development of the World Wide Web, cloud computing, and big data. It is the realm of intermolecular network theory to determine the relationships between the essential physics of a system and the topological properties of the network and to derive new techniques in graph theory that can be related to the underlying physico-chemical or reactive properties of a system. Examples are used throughout this chapter that demonstrate applications to a wide variety of complex chemical systems, including ion association within electrolytes, mass transport and the properties of liquid–liquid phase boundaries, and multicomponent solutions.

Complex networks↗

Improved pore network models to simulate single-phase flow in porous media by coupling with lattice Boltzmann method

In this paper, different pore network models to simulate single-phase flow in porous media are built and their accuracy is evaluated. In addition to the conventional pore network model (CPNM) which consists of regular pore bodies and throat bonds, three improved pore network models (IPNMs) are developed allowing to better describing the real pore and throat geometry. The first improved pore network model (IPNM1) replaces the regular throat bond with a throat bond showing the real throat cross section. The second improvement (IPNM2) uses a series of sub-throat bonds with varying cross sections to better describe the real throat geometry, which is firstly proposed in this paper. The third model (IPNM3) extracts the real pore-throat-pore geometry without simplification. The conductance of fluid flow through these more realistic throat bonds is calculated by the lattice Boltzmann method (LBM). The accuracy and computational efficiency of the different pore network models are evaluated taking the LBM simulation over the whole porous medium as reference solution. The global permeability and detailed pressure distributions in the pores for the different pore network models are validated. The results show that the accuracy of the pore network model increases from CPNM to IPNM3, but at the expense of increasing computational cost. This study suggests that IPNM3 can replace a whole-domain LBM simulation with similar accuracy but much lower computational cost. As a first-order approximation the newly proposed IPNM2 is suggested as good compromise between accuracy and computational cost.

42 ENGINEERING↗

Baseline effects of transcranial direct current stimulation on glutamatergic neurotransmission and large-scale network connectivity

Transcranial direct current stimulation (tDCS) modulates glutamatergic neurotransmission and can be utilized as a novel treatment intervention for a multitude of populations. However, the exact mechanism by which tDCS modulates the brain's neural architecture, from the micro to macro scales, have yet to be investigated. In this paper, using a within-subjects design, resting-state functional magnetic resonance imaging (rs-fMRI) and proton magnetic resonance spectroscopy ( 1 H MRS) were performed immediately before and after the administration of anodal tDCS over right parietal cortex. Group independent component analysis (ICA) was used to decompose fMRI scans into 75 brain networks, from which 12 resting-state networks were identified that had significant voxel-wise functional connectivity to anatomical regions of interest. 1 H MRS was used to obtain estimates of combined glutamate and glutamine (Glx) concentrations from bilateral intraparietal sulcus. Paired sample t-tests showed significantly increased Glx under the anodal electrode, but not in homologous regions of the contralateral hemisphere. Increases of within-network connectivity were observed within the superior parietal, inferior parietal, left frontal–parietal, salience and cerebellar intrinsic networks, and decreases in connectivity were observed in the anterior cingulate and the basal ganglia ( p <0.05, FDR-corrected). Individual differences in Glx concentrations predicted network connectivity in most of these networks. Finally, the observed relationships between glutamatergic neurotransmission and network connectivity may be used to guide future tDCS protocols that aim to target and alter neuroplastic mechanisms in healthy individuals as well as those with psychiatric and neurologic disorders.

60 APPLIED LIFE SCIENCES↗

Recyclability of reversible polymer networks over a Dozen reprocessing cycles

Reversible polymer networks capable of reversible reactions along their backbone provide a promising strategy for addressing waste management challenges associated with conventional thermoset products. However, reversible polymer networks cannot be recycled infinitely. Unavoidable side reactions eventually cause significant degradation of mechanical properties or loss of recyclability. This study aims to answer a simple yet critical question on reversible polymer network systems: how many reprocessing cycles can be achieved before profound mechanical degradation or a loss of recyclability? The recyclability of Diels–Alder (DA) network samples was evaluated by repeating consistent reprocessing cycles until they were no longer reprocessable. To enhance their recyclability, the chemical structure of the maleimide precursor was tailored to mitigating side reactions by maleimide homopolymerization. Remarkably, by employing a maleimide precursor with alkyl substitutions on its phenyl group, the DA network system attained 12 reprocessing cycles using injection molding at 160 °C without significant degradation of mechanical properties. However, the 13th reprocessing cycle did not succeed. Rheological analysis revealed the accumulation of non-reversible bonds within the network structure during repeated reprocessing, despite fairly consistent mechanical properties under operating conditions. This study demonstrates that the rational design of the maleimide precursor is an effective means to enhance the reprocessability of DA networks.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗