Network Topology Evaluation and Transitive Alignments for Molecular Networking
Not provided.
Biochemistry & Molecular Biology↗
SEARCH · Search NASA
Results for “Network topology”
Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.
Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.
Networked Microgrid Topology Reconfiguration to Promote Fairness in Proactive Load Shedding
Increasing occurrences of natural disasters and grid emergency events consistently challenge the safe and reliable operations of power systems. During such emergency situations, system operators may proactively shed load to mitigate risks. However, uncoordinated implementation of load shedding may disrupt electricity supply and even lead to cascading failures. Meanwhile, it is crucial to address potential biases affecting different customers when executing load shedding. This paper addresses the dynamic topology reconfiguration problem for networked microgrids with distributed energy resources under emergency conditions. Specifically, we propose a novel rolling-horizon optimization model that integrates fairness-aware constraints into the networked microgrid topology reconfiguration. Unlike existing approaches that focus solely on efficiency or apply fairness considerations in static settings, our method explicitly incorporates temporal fairness constraints to restrict repeated or excessive load curtailment for load blocks. Moreover, the fairness-aware constraints are specifically developed for the context of dynamic networked microgrid topology reconfiguration, and are designed to be convex or amenable to linear reformulations, which offers a more tractable alternative to traditional models with non-convex formulations. Numerical studies on a modified IEEE 13-bus system and a larger-sized SMART-DS networked microgrid system demonstrate the performance of the proposed algorithm towards more fairness-aware networked microgrid topology reconfiguration decision-making.
24 POWER TRANSMISSION AND DISTRIBUTION↗
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↗
Graph-based Simulation Framework for Power Resilience Estimation and Enhancement
The increasing frequency of extreme weather events poses significant risks to power distribution systems, leading to widespread outages and severe economic and social consequences. This paper presents a novel simulation framework for assessing and enhancing the resilience of power distribution networks under such conditions. Resilience is estimated through Monte Carlo simulations, which simulate extreme weather scenarios and evaluate the impact on infrastructure fragility. Due to the proprietary nature of power network topology, a distribution network is synthesized using publicly available data. To generate the weather scenarios, an extreme weather generation method is developed. To enhance resilience, renewable resources such as solar panels and energy storage systems (batteries in this study) are incorporated. A customized Genetic Algorithm is proposed to determine the optimal locations and capacities for solar panels and battery installations, maximizing resilience while balancing cost constraints. Experiment results demonstrate that on a large-scale synthetic distribution network with more than 300,000 nodes and 300,000 edges, the proposed framework can efficiently evaluate the resilience, and enhance the resilience through the installations of distributed energy resources (DERs), providing utilities with valuable insights for community-level power system resilience estimation and enhancement.
Wang, Xuesong [Wayne State Univ., Detroit, MI (Uni↗
Optimal Network Reconfiguration and Scheduling With Hardware-in-the-Loop Validation for Improved Microgrid Resilience
With the increased occurrence of various major extreme weather events, power outages and prompt power system restorations have recently drawn more attention to the resilience and recovery of power systems. From the perspective of a more resilient power delivery at the distribution grid, system restoration using network topology reconfiguration together with optimal scheduling of distributed energy resources are adopted in this paper. The proposed optimization model aims at minimizing the total load shedding cost and other operational costs, in which linearized topological constraints borrowed from graph theory and linearized DistFlow models are respectively used to maintain the radial network topology and power flow balance after system contingencies. To demonstrate the applicability of the proposed strategy, a real-world case study of a networked three-microgrid system in Adjuntas, Puerto Rico, is used with the consideration of different independent/interconnected microgrid scenarios, contingencies, and fairness settings. Furthermore, hardware-in-the-loop testing is conducted for the same three-microgrid network, where the closely matched results with the simulated ones have validated the effectiveness of the proposed restoration strategy, which is now ready to move one step forward towards field deployment. Finally, to test the proposed restoration strategy in a larger networked system, the modified IEEE-33 bus test distribution system is considered, and the results show a more resilient power delivery for critical loads under three and four line outages.
24 POWER TRANSMISSION AND DISTRIBUTION↗
Hierarchical Network Partitioning for Solution of Potential-Driven, Steady-State Nonlinear Network Flow Equations
The solution of potential-driven steady-state flow in large networks is a task which manifests in various engineering applications, such as transport of natural gas or water through pipeline networks. The resultant system of nonlinear equations depends on the network topology, and in general, there is no numerical algorithm that offers guaranteed convergence to the solution (assuming a solution exists). Some methods offer guarantees in cases where the network topology satisfies certain assumptions, but these methods fail for larger networks. On the other hand, the Newton-Raphson algorithm offers a convergence guarantee if the starting point lies close to the (unknown) solution. It would be advantageous to compute the solution of the large nonlinear system through the solution of smaller nonlinear sub-systems wherein the solution algorithms (Newton-Raphson or otherwise) are more likely to succeed. Here, this letter proposes and describes such a procedure, a hierarchical network partitioning algorithm that enables the solution of large nonlinear systems corresponding to potential-driven steady-state network flow equations.
42 ENGINEERING↗
Investigating Resiliency of Transportation Network under Targeted and Potential Climate Change Disruptions
Ensuring robustness and resilience in intermodal transportation systems is essential for the continuity and reliability of global logistics. These systems are vulnerable to various disruptions, including natural disasters and technical failures. Despite significant research on freight transportation resilience, investigating the robustness of the system after targeted and climate-change-driven disruption remains a crucial challenge. Drawing on network science methodologies, this study models the interdependencies within the rail and water transport networks and simulates different disruption scenarios to evaluate system responses. Here, we use the data from the U.S. Department of Energy Volpe Center for network topology and tonnage projections. The proposed framework quantifies deliberate, stochastic, and climate-driven infrastructure failure, using higher resolution downscaled multiple Earth System Models’ simulations from Coupled Model Intercomparison Project Phase version 6. We show that the disruptions of a few nodes could have a larger impact on the total tonnage of freight transport than on network topology. For example, the removal of targeted 20 nodes can bring the total tonnage carrying capacity to 30% with about 75% of the rail freight network intact. This research advances the theoretical understanding of transportation resilience and provides practical applications for infrastructure managers and policymakers. By implementing these strategies, stakeholders and policymakers can better prepare for and respond to unexpected disruptions, ensuring sustained operational efficiency in transportation networks.
Climate Change Disruptions↗
Graph Analytics on Jellyfish topology
Because large unstructured datasets is important for many science domains, distributed graph analytics is critical to many scientists. Unfortunately, obtaining scaling and performance for irregular communication is challenging because contemporary network interconnects are primarily designed to maximize bandwidths of fixed-neighborhoods large-message exchanges (e.g., stencils). Although there is no consensus on the “best” network topologies for irregular communication, unstructured graph-based interconnects can be more suitable. We analyze three popular graph workloads – clustering, pattern enumeration, and traversal — on comparable networks (in terms of resources and costs) constructed from Jellyfish Random Regular, Dragonfly and Fat tree topologies, varying the routing algorithms. Using packet-level simulations, we demonstrate up to 60% improvement in communication time with Jellyfish due to diversity of the short paths between arbitrary endpoints, which can reduce overall network stalls and congestion.
Graph Analytics, network topology, interconnect, H↗
Distributed Automatic Generation Control Considering DPV Using T&D Dynamic Co-Simulation
The increasing adoption of distributed energy resources (DERs) over the last decade warrants a reconsideration of control of generation resources. This paper proposes a distributed Automatic Generation Control (AGC) using transmission-and-distribution (T&D) dynamic co-simulation framework for the efficient DPV frequency regulation services. The co-simulation framework allows AGC units to exchange the information for distributed AGC, based on their adopted communication network topology. As a result, a cost-effective automatic generation control is achieved with DPV and conventional generators. The proposed distributed AGC is based on the gossip algorithm in which the neighboring AGC units share the relevant local information with each other and updates their share of AGC regulation signal. Distributed photovoltaics (DPV) unit contribute to AGC response based on their headroom capacity via DER aggregators. The algorithm is tested on IEEE-14 bus transmission system under conditions of generation failure and random load variation to observe effective frequency regulations service offered by DPVs and other AGC units. The study shows that DPV can effectively participate in AGC with the proposed distributed control framework.
automatic generation control↗
Spike-and-Slab Shrinkage Priors for Structurally Sparse Bayesian Neural Networks
Network complexity and computational efficiency have become increasingly significant aspects of deep learning. Sparse deep learning addresses these challenges by recovering a sparse representation of the underlying target function by reducing heavily overparameterized deep neural networks. Specifically, deep neural architectures compressed via structured sparsity (e.g., node sparsity) provide low-latency inference, higher data throughput, and reduced energy consumption. In this article, we explore two well-established shrinkage techniques, Lasso and Horseshoe, for model compression in Bayesian neural networks (BNNs). To this end, we propose structurally sparse BNNs, which systematically prune excessive nodes with the following: 1) spike-and-slab group Lasso (SS-GL) and 2) SS group Horseshoe (SS-GHS) priors, and develop computationally tractable variational inference, including continuous relaxation of Bernoulli variables. We establish the contraction rates of the variational posterior of our proposed models as a function of the network topology, layerwise node cardinalities, and bounds on the network weights. Furthermore, we empirically demonstrate the competitive performance of our models compared with the baseline models in prediction accuracy, model compression, and inference latency.
97 MATHEMATICS AND COMPUTING↗
An Evaluation of the Effect of Network Cost Optimization for Leadership Class Supercomputers
Dragonfly-based networks are an extensively deployed network topology in large-scale high-performance computing due to their cost-effectiveness and efficiency. The US will soon have three Exascale supercomputers for leadership class workloads deployed using dragonfly networks. Compared to indirect networks of similar scale, the dragonfly network has considerably reduced cable lengths, cable counts, and switch counts, resulting in significant network cost savings for a given system size, however, these cost reductions result in reduced global minimal paths and more challenging routing. Additionally, large scale dragonfly networks often require a taper at the global link level, resulting in less bisection bandwidth than is achievable in other traditional non-blocking topologies of equivalent scale. While dragonfly networks have been extensively studied, they have yet to be fully evaluated in an extreme scale (i.e., exascale) system that targets capability workloads. In this paper, we present the results of the first large scale evaluation of a dragonfly network on an exascale system (Frontier) and compare its behavior to a similar scale fat-tree network on a previous generation TOP500 system (Summit). This evaluation aims to determine the effect of network cost optimizations by measuring a tapered topology’s impact on capability workloads. Our evaluation is based on a collection of synthetic microbenchmarks, mini-apps, and full scale applications. It compares the scaling efficiencies of each benchmark between the dragonfly-based Frontier and the fat-tree-based Summit systems. Our results show that a dragonfly network is $\sim \mathbf{3 0 \%}$ more cost efficient than a fat-tree topology, which amortizes to $\sim 3 \%$ of an exascale system cost. Furthermore, while tapered dragonfly networks impose significant tradeoffs, the impacts are not as broad as initially thought and are mostly seen in applications with global communication patterns, particularly all-to-all (e.g., FFT-based algorithms), but also local communication patterns (e.g., nearest-neighbor algorithms) that are sensitive to network performance variability.
Khan, Awais↗
Generating synthetic signaling networks for in silico modeling studies
Predictive models of signaling pathways have proven to be difficult to develop. Reasons include the uncertainty in the number of species, the complexity in species’ interactions, and the sparseness and uncertainty in experimental data. Traditional approaches to developing mechanistic models rely on collecting experimental data and fitting a single model to that data. This approach works for simple systems but has proven unreliable for complex systems such as biological signaling networks. For example, uncertainty and sparseness of the data often result in overfitted models that have little predictive value beyond recapitulating the experimental data itself. Thus, there is a need to develop new approaches to create predictive mechanistic models of complex systems. However, to determine the effectiveness of any new algorithm, a baseline model is needed to test its performance. To meet this need, we developed a method for generating artificial synthetic networks that are reasonably realistic and thus can be treated as ground truth models. These synthetic models can then be used to generate synthetic data for developing and testing algorithms designed to recover the underlying network topology and associated parameters. Here, we describe a simple approach for generating synthetic signaling networks that can be used for this purpose.
42 ENGINEERING↗
Macroscopic Traffic Modeling Using Probe Vehicle Data: A Machine Learning Approach
Abstract The macroscopic fundamental diagram (MFD) captures an orderly relationship among traffic flow, density, and speed at the network level. It is a simple yet powerful tool for modeling traffic dynamics in large urban networks with broad application in traffic control and management. However, empirically derived MFDs in urban regions require high-resolution traffic data from the network. Having the network flow and vehicular density estimated at the (granular) census tract level using vehicle probe data, we apply machine learning methods to predict the MFDs across U.S. urban areas and capture the impacts of location-specific input features on the network flow–density relationships at a large scale. The results show that, among the four tested machine learning approaches (Random Forest, XGBoost, Support Vector Machine, and Neural Network), XGBoost delivers the best performance in predicting network traffic flow based on vehicular density and location attributes. Using interaction Shapley Additive explanation (SHAP) values and partial correlation analysis, we examine the factors influencing MFD shapes across different locations. Our empirical findings reveal that across U.S. urban areas, network topology, transportation infrastructure, and land use are primary factors shaping MFD curves, while demand and trip-related factors play a lesser role. Specifically, higher ranking roads, centrality, and development levels correlate positively with network capacity and critical density, whereas negative associations are observed for network connectivity, mixed-use development, and road roughness levels.
Jin, Ling↗
Torsional Flexibility Tuning of Hexa-Carboxylate Ligands to Unlock Distinct Topological Access to Zirconium Metal–Organic Frameworks
Zirconium-based metal–organic frameworks (Zr-MOFs) exhibit remarkable structural diversity and functionality. However, uncovering new topological types within this family remains a considerable challenge today. Herein, we report two new hexa-topic ligands designed through the introduction of torsional flexibility, which enable the construction of two Zr-MOFs featuring rare network topologies. The (4,4′,4″,4‴,4‴′,4‴′′-((2-carboxybenzene-1,3,5-triyl)tris(9H-carbazole-9,3,6-triyl))hexabenzoic acid ligand (BTCH)) was obtained by replacing the rigid triptycene core in the H6PET-1 ligand (4,4′,4″,4‴,4‴′,4‴′′-(9,10-dihydro-9,10-[1,2]benzenoanthracene-2,3,6,7,14,15-hexayl)hexabenzoic acid) with a benzene-tricarbazole unit. Owing to its torsionally flexible core that allows rotational freedom to the arms, this ligand directs the construction of NU-2620 (NU represents Northwestern University), a Zr-MOF with 8-connected Zr6 clusters and the rare nuh topology. Further flexibilization of the carbazole units to benzene rings yielded the even more torsionally flexible 5′,5‴-bis(4-carboxyphenyl)-5″-(4,4″-dicarboxy-[1,1′:3′,1″-terphenyl]-5′-yl)-[1,1′:3′,1″:3″,1‴:3‴,1‴′-quinquephenyl]-4,4‴′-dicarboxylic acid ligand (CCTT), which forms NU-2630 featuring 6-connected clusters and the pcu topology. Both frameworks exhibit good chemical stability, prompting evaluation of their performance in CO2 photoreduction catalysis. Under low-concentration CO2 conditions, NU-2620 displays markedly higher catalytic activity than its benzene-based analogue, NU-2630, thanks to the abundance of photoactive carbazole units within its structure. These results demonstrate that introducing torsional flexibility in high-connected linkers can unlock access to new topologies and accelerates the reticular expansion of Zr-MOFs.
37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
How Does Escherichia coli Allocate Proteome?
Microorganisms are shown to actively partition their intracellular resources, such as pro- teins, for growth optimization. Recent experiments have begun to reveal molecular com- ponents unpinning the partition; however, it remains unclear quantitatively how individual parts orchestrate to yield precise resource allocation that is both robust and dynamic. Here we developed a coarse-grained mathematical framework that centers on guanosine pentaphosphate (ppGpp)-mediated regulation, and used it to systematically uncover the design principles of proteome allocation in Escherichia coli. Our results showed that cellular ability of resource partition lies in an ultrasensitive, negative feedback control- ling topology with the ultrasensitivity arising from zero-order amino acid kinetics and the negative feedback from ppGpp-controlled ribosome synthesis. In addition, together with the time-scale separation between slow ribosome kinetics and fast turnovers of ppGpp and amino acids, the network topology confers the organism an optimization mechanism which mimics sliding mode control, a nonlinear optimization strategy that is widely used in man-made systems. We further showed that such a controlling mechanism is robust against parameter variations and molecular fluctuations, and is also efficient for biomass production over time. Furthermore, this work elucidates the fundamental controlling mechanism of E. coli proteome allocation, thereby providing insights into quantitative microbial physiology as well as the design of synthetic gene networks.
59 BASIC BIOLOGICAL SCIENCES↗
Distribution System Congestion Management - A Survey of Reliable Integration for Aggregated Resources and Microgrids
Rising penetration of consumer-owned Distribution Grid Resources (DGRs), increasingly managed by third party aggregators and enrolled in grid services and wholesale market programs, can create localized congestion in distribution networks. Managing these constraints is challenging due to a persistent coordination and information gap: utilities are accountable for reliability and have network topology and state visibility, while aggregators control the DGR capability needed to relieve congestion. This survey synthesizes congestion management solutions for distribution systems with high DGR penetration, covering both market-based mechanisms (distribution level markets, locational pricing, flexibility auctions) and non-market-based solutions (network reconfiguration, direct DGR control, demand response, curtailment, etc.). The literature is organized across three decision horizons: long term planning, operational planning, and real-time operation. Special attention is devoted to emerging distribution system operator architectures and coordination frameworks spanning transmission system operators, aggregators, and microgrids. Drawing on recent case studies and implementations, we distill best practices, identify key technical and economic barriers, and outline research directions. The evidence points to a shift toward integrated congestion management that combines market signals with technical controls, enabled by improved monitoring, forecasting, and closed loop control capabilities.
Active Distribution Networks (ADN)↗