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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.

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At least 1,531 records · Page 85
All sourcesNASA NTRSDOE OSTI
DOE OSTI2022

A numerical approach for detecting switch-like bistability in mass action chemical reaction networks with conservation laws

Theoretical analysis of signaling pathways can provide a substantial amount of insight into their function. One particular area of research considers signaling pathways capable of assuming two or more stable states given the same amount of signaling ligand. This phenomenon of bistability can give rise to switch-like behavior, a mechanism that governs cellular decision making. Investigation of whether or not a signaling pathway can confer bistability and switch-like behavior, without knowledge of specific kinetic rate constant values, is a mathematically challenging problem. Recently a technique based on optimization has been introduced, which is capable of finding example parameter values that confer switch-like behavior for a given pathway. Although this approach has made it possible to analyze moderately sized pathways, it is limited to reaction networks that presume a uniterminal structure. It is this limited structure we address by developing a general technique that applies to any mass action reaction network with conservation laws. In this paper we developed a generalized method for detecting switch-like bistable behavior in any mass action reaction network with conservation laws. The method involves (1) construction of a constrained optimization problem using the determinant of the Jacobian of the underlying rate equations, (2) minimization of the objective function to search for conditions resulting in a zero eigenvalue, (3) computation of a confidence level that describes if the global minimum has been found and (4) evaluation of optimization values, using either numerical continuation or directly simulating the ODE system, to verify that a bistability region exists. The generalized method has been tested on three motifs known to be capable of bistability. We have developed a variation of an optimization-based method for the discovery of bistability, which is not limited to uniterminal chemical reaction networks. Successful completion of the method provides an S-shaped bifurcation diagram, which indicates that the network acts as a bistable switch for the given optimization parameters.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2021

Gene co-expression network analysis in zebrafish reveals chemical class specific modules

Zebrafish is a popular animal model used for high-throughput screening of chemical hazards, however, investigations of transcriptomic mechanisms of toxicity are still needed. Here, our goal was to identify genes and biological pathways that Aryl Hydrocarbon Receptor 2 (AHR2) Activators and flame retardant chemicals (FRCs) alter in developing zebrafish. Taking advantage of a compendium of phenotypically-anchored RNA sequencing data collected from 48-h post fertilization (hpf) zebrafish, we inferred a co-expression network that grouped genes based on their transcriptional response. Genes responding to the FRCs and AHR2 Activators localized to distinct regions of the network, with FRCs inducing a broader response related to neurobehavior. AHR2 Activators centered in one region related to chemical stress responses. We also discovered several highly co-expressed genes in this module, including cyp1a, and we subsequently show that these genes are definitively within the AHR2 signaling pathway. Systematic removal of the two chemical types from the data, and analysis of network changes identified neurogenesis associated with FRCs, and regulation of vascular development associated with both chemical classes. We also identified highly connected genes responding specifically to each class that are potential biomarkers of exposure. Overall, we created the first zebrafish chemical-specific gene co-expression network illuminating how chemicals alter the transcriptome relative to each other. In addition to our conclusions regarding FRCs and AHR2 Activators, our network can be leveraged by other studies investigating chemical mechanisms of toxicity.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Many but not all deep neural network audio models capture brain responses and exhibit correspondence between model stages and brain regions

Models that predict brain responses to stimuli provide one measure of understanding of a sensory system and have many potential applications in science and engineering. Deep artificial neural networks have emerged as the leading such predictive models of the visual system but are less explored in audition. Prior work provided examples of audio-trained neural networks that produced good predictions of auditory cortical fMRI responses and exhibited correspondence between model stages and brain regions, but left it unclear whether these results generalize to other neural network models and, thus, how to further improve models in this domain. We evaluated model-brain correspondence for publicly available audio neural network models along with in-house models trained on 4 different tasks. Most tested models outpredicted standard spectromporal filter-bank models of auditory cortex and exhibited systematic model-brain correspondence: Middle stages best predicted primary auditory cortex, while deep stages best predicted non-primary cortex. However, some state-of-the-art models produced substantially worse brain predictions. Models trained to recognize speech in background noise produced better brain predictions than models trained to recognize speech in quiet, potentially because hearing in noise imposes constraints on biological auditory representations. The training task influenced the prediction quality for specific cortical tuning properties, with best overall predictions resulting from models trained on multiple tasks. The results generally support the promise of deep neural networks as models of audition, though they also indicate that current models do not explain auditory cortical responses in their entirety.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2020

Trainability of ReLU networks and Data-dependent Initialization

Here, in this paper, we study the trainability of rectified linear unit (ReLU) networks at initialization. A ReLU neuron is said to be dead if it only outputs a constant for any input. Two death states of neurons are introduced–tentative and permanent death. A network is then said to be trainable if the number of permanently dead neurons is sufficiently small for a learning task. We refer to the probability of a randomly initialized network being trainable as trainability. We show that a network being trainable is a necessary condition for successful training, and the trainability serves as an upper bound of training success rates. In order to quantify the trainability, we study the probability distribution of the number of active neurons at initialization. In many applications, overspecified or overparameterized neural networks are successfully employed and shown to be trained effectively. With the notion of trainability, we show that overparameterization is both a necessary and a sufficient condition for achieving a zero training loss. Furthermore, we propose a data-dependent initialization method in an overparameterized setting. Numerical examples are provided to demonstrate the effectiveness of the method and our theoretical findings.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2022

MULTISTEP AND CONTINUOUS PHYSICS-INFORMED NEURAL NETWORK METHODS FOR LEARNING GOVERNING EQUATIONS AND CONSTITUTIVE RELATIONS

In this work, we investigate the applicability and relative merit of discrete and continuous versions of physics-informed neural network (PINN) methods for learning unknown governing equations or constitutive relations in a nonlinear dynamical system. In the case of unknown dynamics, entire right-hand-side (RHS) equations of the ordinary differential equations are unknown. In the case of unknown constitutive relations, however, the RHS equations are known up to the specification of constitutive relations (that may depend on the state of the system). We use a deep neural network to model unknown governing equations or constitutive relations. The discrete PINN approach combines classical multistep discretization methods for dynamical systems with neural-network-based machine learning methods. On the other hand, the continuous versions utilize deep neural networks to minimize the residual function for the continuous governing equations. We use the case of a fedbatch bioreactor system to study the effectiveness of these approaches and discuss conditions for their applicability. Our results indicate that the accuracy of the trained neural network models is much higher for the cases where we only have to learn a constitutive relation instead of all dynamics. This finding corroborates the well-known fact from scientific computing that building as much structural information as is available into an algorithm can enhance its efficiency and/or accuracy.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2023

pyflowline: a mesh-independent river network generator for hydrologic models

River networks are crucial in hydrologic and Earth system models. Accurately representing river networks in spatially distributed hydrologic models requires considering the model's spatial discretization and computational mesh. However, current methods of generating river networks for hydrologic models do not typically support unstructured meshes. Unstructured meshes offer numerous advantages over traditional, structured meshes. To overcome this limitation, we developed PyFlowline, a Python package that generates mesh-independent river networks. With PyFlowline, hydrologic modelers can generate conceptual river networks and their topological relationships for both structured and unstructured meshes.

47 OTHER INSTRUMENTATION↗
DOE OSTI2014

Exploiting the Use of Social Networking to Facilitate Collaboration in the Scientific Community

The goal of this project was to exploit social networking to facilitate scientific collaboration. The project objective was to research and identify scientific collaboration styles that are best served by social networking applications and to model the most effective social networking applications to substantiate how social networking can support scientific collaboration. To achieve this goal and objective, the project was to develop an understanding of the types of collaborations conducted by scientific researchers, through classification, data analysis and identification of unique collaboration requirements. Another technical objective in support of this goal was to understand the current state of technology in collaboration tools. In order to test hypotheses about which social networking applications effectively support scientific collaboration the project was to create a prototype scientific collaboration system. The ultimate goal for testing the hypotheses and research of the project was to refine the prototype into a functional application that could effectively facilitate and grow collaboration within the U.S. Department of Energy (DOE) research community.

99 GENERAL AND MISCELLANEOUS↗
DOE OSTI2013

Variable-Width Datapath for On-Chip Network Static Power Reduction

With the tight power budgets in modern large-scale chips and the unpredictability of application traffic, on-chip network designers are faced with the dilemma of designing for worst- case bandwidth demands and incurring high static power overheads, or designing for an average traffic pattern and risk degrading performance. This paper proposes adaptive bandwidth networks (ABNs) which divide channels and switches into lanes such that the network provides just the bandwidth necessary in each hop. ABNs also activate input virtual channels (VCs) individually and take advantage of drowsy SRAM cells to eliminate false VC activations. In addition, ABNs readily apply to silicon defect tolerance with just the extra cost for detecting faults. For application traffic, ABNs reduce total power consumption by an average of 45percent with comparable performance compared to single-lane power-gated networks, and 33percent compared to multi-network designs.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2016

Neurogenesis Deep Learning: Extending deep networks to accommodate new classes

Neural machine learning methods, such as deep neural networks (DNN), have achieved remarkable success in a number of complex data processing tasks. These methods have arguably had their strongest impact on tasks such as image and audio processing – data processing domains in which humans have long held clear advantages over conventional algorithms. In contrast to biological neural systems, which are capable of learning continuously, deep artificial networks have a limited ability for incorporating new information in an already trained network. As a result, methods for continuous learning are potentially highly impactful in enabling the application of deep networks to dynamic data sets. Here, inspired by the process of adult neurogenesis in the hippocampus, we explore the potential for adding new neurons to deep layers of artificial neural networks in order to facilitate their acquisition of novel information while preserving previously trained data representations. Our results on the MNIST handwritten digit dataset and the NIST SD 19 dataset, which includes lower and upper case letters and digits, demonstrate that neurogenesis is well suited for addressing the stability-plasticity dilemma that has long challenged adaptive machine learning algorithms.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Transcriptomic Network Analysis of Cyanobacterial-Methylotroph Interactions in Coculture and Axenic Conditions

A previous study demonstrated the potential for Cyanobacterial-Methylotroph cocultures to facilitate biogas processing as well as to be used in other biotechnological applications. To advance this technology, we investigated potential interactions between Cyanobacterium stanieri HL-69 (HL69) and Methylotuvimicrobium alkaliphilum 20Z (20Z) by inferring and analyzing gene co-expression networks under co-culture and axenic conditions. Five different co-expression networks were examined. These networks were inferred using gene expression profiles for 20Z axenic condition, HL-69 axenic, HL-69, 20Z coculture, HL-69 coculture, and cross-species HL-69-20Z coculture. Through the analysis of node (gene) betweenness and node normalized degree values in all five network cases, we compared adjustments in gene expression between growth conditions (axenic vs co-culture) as well as identify biological functions relevant to interspecies interactions. This analysis was done to distinguish between gene interactions within an organism and gene interactions between two organisms. Moreover, for all five cases we investigated two different network cutoff levels of 3,000 and 10,000. By shedding light on inter- and intra- species interactions, we hope to gain a better understanding of how these two organisms interact. This research will allow the investigation of further biotechnological applications of coculture systems and optimization of such applications for biotechnological purposes.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2024

Ergodicity, lack thereof, and the performance of reservoir computing with memristive networks and nanowire

Networks composed of nanoscale memristive components, such as nanowire and nanoparticle networks, have recently received considerable attention because of their potential use as neuromorphic devices. In this study, we explore ergodicity in memristive networks, showing that the performance on machine leaning tasks improves when these networks are tuned to operate at the edge between two global stability points. We find this lack of ergodicity is associated with the emergence of memory in the system. We measure the level of ergodicity using the Thirumalai-Mountain metric, and we show that in the absence of ergodicity, two different memristive network systems show improved performance when utilized as reservoir computers (RC). We highlight that it is also important to let the system synchronize to the input signal in order for the performance of the RC to exhibit improvements over the baseline.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2014

Protein Network Signatures Associated with Exogenous Biofuels Treatments in Cyanobacterium Synechocystis sp. PCC 6803

Although recognized as a promising microbial cell factory for producing biofuels, current productivity in cyanobacterial systems is low. To make the processes economically feasible, one of the hurdles, which need to be overcome is the low tolerance of hosts to toxic biofuels. Meanwhile, little information is available regarding the cellular responses to biofuels stress in cyanobacteria, which makes it challenging for tolerance engineering. Using large proteomic datasets of Synechocystis under various biofuels stress and environmental perturbation, a protein co-expression network was first constructed and then combined with the experimentally determined protein–protein interaction network. Proteins with statistically higher topological overlap in the integrated network were identified as common responsive proteins to both biofuels stress and environmental perturbations. In addition, a weighted gene co-expression network analysis was performed to distinguish unique responses to biofuels from those to environmental perturbations and to uncover metabolic modules and proteins uniquely associated with biofuels stress. The results showed that biofuel-specific proteins and modules were enriched in several functional categories, including photosynthesis, carbon fixation, and amino acid metabolism, which may represent potential key signatures for biofuels stress responses in Synechocystis. Network-based analysis allowed determination of the responses specifically related to biofuels stress, and the results constituted an important knowledge foundation for tolerance engineering against biofuels in Synechocystis.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2023

Editorial: Edge computation and digital distribution networks

The development of digital technologies is penetrating all areas of energy revolution. Based on the in-depth integration of advanced digital technologies, distribution networks are gradually transforming into digital distribution networks (DDNs) with tremendous changes from the structure to the operation mode. DDNs is the digitalized appearance of the physical distribution network, in which ubiquitous connections and massive data are the basic characteristics (Huo et al., 2022). It is an important task to utilize the massive data and propose novel operation modes to construct more efficient and intelligent distribution networks (Jian et al., 2022). Among the advanced digital technologies in DDNs, edge computing has received wide attention (Zhao et al., 2022). It has superior performance in local sensing and intelligent computation, which can effectively relieve huge communication pressure. However, the limited computing resources and the complex computing tasks at the edge side significantly challenge the collaboration of distribution network regulation and advanced digital technologies (Hu et al., 2022). It is necessary to find out proper methods to utilize advanced digital technology to construct DDNs. This Research Topic is organized to introduce the recent progress in the construction, operation and advanced computational methods for DDNs. Finally, seven papers have been accepted, which can be sorted into the following three categories: 1) Evolution and technical features of DDNs, 2) Intelligent operation control of DDNs, 3) Advanced simulation for large-scale DDNs. The three sections below respectively introduce the major research and contributions of the papers covered in each category.

24 POWER TRANSMISSION AND DISTRIBUTION↗
DOE OSTI2019

Principles of robust innate immune response to viral infections: a multiplex network analysis

The human innate immune response, particularly the type-I interferon (IFN) response, is highly robust and effective first line of defense against virus invasion. IFN molecules are produced and secreted frominfected cells upon virus infection and recognition. They then act as signaling/communicationmolecules to activate an antiviral response in neighboring cells so that those cells become refractory to infection. Previous experimental studies have identified the detailed molecular mechanisms for the IFN signaling and response. However, the principles underlying how host cells use IFN to communicate with each other to collectively and robustly halt an infection is not understood. Here we take a multiplex network modeling approach to provide a theoretical framework to identify key factors that determine the effectiveness of the IFN response against virus infection of a host. In this approach, we consider the virus spread among host cells and the interferon signaling to protect host cells as a competition process on a two-layer multiplex network. We focused on two types of network topology, i.e., the Erdős-Rényi (ER) network and the Geometric Random (GR) network, which represent the scenarios when infection of cells is mostly well mixed (e.g., in the blood) and when infection is spatially segregated (e.g., in tissues), respectively.We show that in general, the IFN response works effectively to stop viral infection when virus infection spreads spatially (a most likely scenario for initial virus infection of a host at the peripheral tissue). Importantly, we show that the effectiveness of the IFN response is robust against large variations in the distance of IFN diffusion as long as IFNs diffuse faster than viruses and they can effectively induce antiviral responses in susceptible host cells. This suggests that the effectiveness of the IFN response is insensitive to the specific arrangement of host cells in peripheral tissues. Thus, our work provides a quantitative explanation of why the IFN response can serve an effective and robust response in different tissue types to a wide range of viral infections of a host.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Distributed Energy Management for Networked Microgrids with Hardware-in-the-Loop Validation

For the cooperative operation of networked microgrids, a distributed energy management considering network operational objectives and constraints is proposed in this work. Considering various ownership and privacy requirements of microgrids, utility directly interfaced distributed energy resources (DERs) and demand response, a distributed optimization is proposed for obtaining optimal network operational objectives with constraints satisfied through iteratively updated price signals. The alternating direction method of multipliers (ADMM) algorithm is utilized to solve the formulated distributed optimization. The proposed distributed energy management provides microgrids, utility-directly interfaced DERs and responsive demands the opportunity of contributing to better network operational objectives while preserving their privacy and autonomy. Results of numerical simulation using a networked microgrids system consisting of several microgrids, utility directly interfaced DERs and responsive demands validate the soundness and accuracy of the proposed distributed energy management. The proposed method is further tested on a practical two-microgrid system located in Adjuntas, Puerto Rico, and the applicability of the proposed strategy is validated through hardware-in-the-loop (HIL) testing.

24 POWER TRANSMISSION AND DISTRIBUTION↗
DOE OSTI2025

Networked Microgrid Energy Management Considering Ownership and Control Structures: A Comparison

With the growing deployment of microgrids, networked microgrids have emerged for their additional advantages of economy, reliability and resilience by coordinating the operation of multiple microgrids. As microgrids are operated with different ownership, objectives and functionalities, the formed networked microgrids show characteristics of mixed ownership, inconsistent objectives and various functionalities. To enable the coordinated operation of networked microgrids, three control structures, i.e., centralized, distributed and decentralized, have been constructed in the literature. However, the data sharing enabling these different paradigms and the resulted value propositions are not well defined, leading to poor resource management and resilience, etc. To solve this issue, a complete comparison of networked microgrid energy management under centralized, distributed and decentralized structures are performed. As a novel contribution, the required minimum data exchange of networked microgrid energy management under three control structures are identified, respectively. The value propositions are calculated and compared against each other by the results of case studies.

control structures↗
DOE OSTI2021

Automated Detection of Instability-Inducing Channel Geometry Transitions in Saint-Venant Simulation of Large-Scale River Networks

A new sweep-search algorithm (SSA) is developed and tested to identify the channel geometry transitions responsible for numerical convergence failure in a Saint-Venant equation (SVE) simulation of a large-scale open-channel network. Numerical instabilities are known to occur at “sharp” transitions in discrete geometry, but the identification of problem locations has been a matter of modeler’s art and a roadblock to implementing large-scale SVE simulations. The new method implements techniques from graph theory applied to a steady-state 1D shallow-water equation solver to recursively examine the numerical stability of each flowpath through the channel network. The SSA is validated with a short river reach and tested by the simulation of ten complete river systems of the Texas–Gulf Coast region by using the extreme hydrological conditions recorded during hurricane Harvey. The SSA successfully identified the problematic channel sections in all tested river systems. Subsequent modification of the problem sections allowed stable solution by an unsteady SVE numerical solver. The new SSA approach permits automated and consistent identification of problem channel geometry in large open-channel network data sets, which is necessary to effectively apply the fully dynamic Saint-Venant equations to large-scale river networks or for city-wide stormwater networks.

54 ENVIRONMENTAL SCIENCES↗
NASA NTRS2006

An Approach to Integrated Spectrum Efficient Network Enhanced Telemetry (iSENET))

As the integrated Network Enhanced Telemetry (iNET) program moves forward in resolving systems engineering design and architecture definition, critical technology "gaps" and a migration path to realizing the integration of this technology are needed to insure a smooth transition from the current legacy point to point telemetry links to a network oriented telemetry system. Specifically, identified by the DoD aeronautical telemetry community is the need for a migration to a network solution for command, control, and transfer of test data by optimizing the physical, data link, and network layers. In this paper, we present a network-centric telemetry approach based on variants of 802.11 that leverages the open standards as well as the previous Advanced Range Telemetry (ARTM) work on the physical layer waveform. Specifically, we present a burst modem approach based on the recent AOFDM 802.11a work, a TDMA-like MAC layer approach based on 802.11e, and then add additional MAC layer features to allow for the multi-hop aeronautical environment using a variant of the current working standards of 802.11s. The combined benefits of the variants obtained from 802.11a, 802.11e, and 802.11s address the needs for both spectrum efficiency in the aeronautical environment and the iNET program.

TDMA↗