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At least 487 records · Page 27

Alterations of urinary metabolite profile in model diabetic nephropathy

Highlights: • {sup 1}H NMR spectroscopy was employed to study urinary metabolite profile in diabetic mouse models. • Mouse urinary metabolome showed major changes that are also found in human diabetic nephropathy. • These models can be new tools to study urinary biomarkers that are relevant to human disease. - Abstract: Countering the diabetes pandemic and consequent complications, such as nephropathy, will require better understanding of disease mechanisms and development of new diagnostic methods. Animal models can be versatile tools in studies of diabetic renal disease when model pathology is relevant to human diabetic nephropathy (DN). Diabetic models using endothelial nitric oxide synthase (eNOS) knock-out mice develop major renal lesions characteristic of human disease. However, it is unknown whether they can also reproduce changes in urinary metabolites found in human DN. We employed Type 1 and Type 2 diabetic mouse models of DN, i.e. STZ-eNOS{sup −/−} C57BLKS and eNOS{sup −/−} C57BLKS db/db, with the goal of determining changes in urinary metabolite profile using proton nuclear magnetic resonance (NMR). Six urinary metabolites with significantly lower levels in diabetic compared to control mice have been identified. Specifically, major changes were found in metabolites from tricarboxylic acid (TCA) cycle and aromatic amino acid catabolism including 3-indoxyl sulfate, cis-aconitate, 2-oxoisocaproate, N-phenyl-acetylglycine, 4-hydroxyphenyl acetate, and hippurate. Levels of 4-hydroxyphenyl acetic acid and hippuric acid showed the strongest reverse correlation to albumin-to-creatinine ratio (ACR), which is an indicator of renal damage. Importantly, similar changes in urinary hydroxyphenyl acetate and hippurate were previously reported in human renal disease. We demonstrated that STZ-eNOS{sup −/−} C57BLKS and eNOS{sup −/−} C57BLKS db/db mouse models can recapitulate changes in urinary metabolome found in human DN and therefore can be useful new tools in metabolomic studies relevant to human pathology.

60 APPLIED LIFE SCIENCES↗

Rapid Evaluation Framework for the CMIP7 Assessment Fast Track

As Earth system models (ESMs) grow in complexity and in volume of output data, there is an increasing need for rapid, comprehensive evaluation of their scientific performance. The upcoming Assessment Fast Track for the Seventh Phase of the Coupled Model Intercomparison Project (CMIP7) will require expeditious response for model analyses designed to inform and drive integrated Earth system assessments. To meet this challenge, the Rapid Evaluation Framework (REF), a community-driven platform for benchmarking and performance assessment of ESMs, was designed and developed. The initial implementation of the REF, constructed to meet the near-term needs of the CMIP7 Assessment Fast Track, builds upon four disparate community evaluation and benchmarking tools that are coupled together using the Coordinated Model Evaluation Capabilities (CMEC) framework. The REF runs within a containerized workflow for portability and reproducibility and is aimed at generating and organizing diagnostics covering a variety of model variables. The REF leverages well documented observational datasets to provide assessments of model fidelity across a collection of diagnostics. All diagnostics were identified and selected with community involvement and consultation. Operational integration with the Earth System Grid Federation (ESGF) will permit automated execution of the REF for selected diagnostics as soon as model output data are published on ESGF by the originating modeling centers. The REF is designed to be portable across a range of current computational platforms to facilitate use by modeling centers for assessing the evolution of model versions or gauging the relative performance of CMIP simulations before being published on ESGF. When integrated into production simulation workflows, results from the REF provide immediate quantitative feedback that allows model developers and scientists to quickly identify model biases and performance issues. After the REF is released to the community, its subsequent development and support will be prioritized by an international consortium of scientists and engineers, enabling a broader impact across Earth science disciplines. For instance, the REF will facilitate improvements to models and will enhance confidence in model projections through process-based selection of models based on their performance with respect to observations. Production of reproducible diagnostics and community-based assessments are key features of the REF. Furthermore, providing interoperability with existing evaluation packages assures that contributions from previous community efforts will be available for use in future model intercomparison projects.

Hoffman, Forrest [ORNL] (ORCID:0000000158024134)↗

IDAES-PSE 2.5.0 Release

The Institute for the Design of Advanced Energy Systems (IDAES) Integrated Platform is a versatile computational environment offering extensive process systems engineering (PSE) capabilities for optimizing the design and operation of complex, interacting technologies and systems. IDAES enables users to efficiently search vast, complex design spaces to discover the lowest cost, most environmentally sustainable solutions while supporting the full process modeling lifecycle, from conceptual design to dynamic optimization and control. The extensible, open platform empowers users to create models of novel processes and rapidly develop custom analyses, workflows, and end-user applications. IDAES-PSE 2.5.0 Release Highlights Upcoming Changes IDAES will be switching to the new Pyomo solver interface in the next release. Whilst this will hopefully be a smooth transition for most users, there are a few important changes to be aware of. The new solver interface uses a different version of the IPOPT writer (“ipopt_v2”) and thus any custom configuration options you might have set for IPOPT will not carry over and will need to be reset. By default, the new Pyomo linear presolver will be activated with ipopt_v2. Whilst are working to identify any bugs in the presolver, it is possible that some edge cases will remain. IDAES will begin deploying a new set of scaling tools and APIs over the next few releases that make use of the new solver writers. The old scaling tools and APIs will remain for backward compatibility but will begin to be deprecated. New Models, Tools and Features New diagnostics check for near-parallel variables and constraints. New diagnostics tools for identifying causes of infeasibility in models. New example for creating a custom model of a liquid-liquid extractor unit operation. Bug Fixes Fixed bug in Gibbs reactor that caused it to appear to have additional spurious degrees of freedom. Fixed bug in the Modular Property Framework that would cause errors when trying to use phase-based material balances with phase equilibria. Fixed bug in Modular Properties Framework that caused errors when initializing models with non-vapor-liquid phase equilibria. Testing and Robustness Deployed the IDAES Diagnostics Toolbox to confirm that there are no structural or numerical issues in the core model libraries. Additional robustness tests for core model, and some associated improvements in the converge tester class. Fixed a number of issues that were causing unexpected warnings to be emitted during testing. Deprecations and Removals Removed examples for RIPE tool which has not been supported for a number of releases.

AS↗

Comparison and analysis of aircraft measurements and mesoscale atmospheric chemistry model simulations of tropospheric ozone

The Regional Acid Deposition Model (RADM) has been applied to several of the field experiments which were part of the Acid Models Operational and Diagnostic Evaluation Study (Acid MODES). The experiment which was of particular interest with regards to ozone photochemistry involved horizontal zig-zag flight patterns (ZIPPER) over an area from the eastern Ohio River valley to the Adirondacks of New York. Model simulations by both the standard resolution RADM (delta x = 80 km) and the nested grid RADM (delta x = 26.7 km) compare well to measurements in the low emission regions in central Pennsylvania and upstate New York, but underestimate in the high emission upper Ohio River valley. The nested simulation does considerably better, however, than the coarse grid simulation in terms of horizontal pattern and concentration magnitudes. Analysis of NO(x) and HO(x) concentrations and photochemical products rates of ozone show that the model's response to large point source emissions is very unsystematic both spatially and temporally. This is due to the models instability to realistically simulate the small scale (subgrid) gradients in precursor concentrations in and around large point source plumes.

Pleim, Jonathan E.↗

Online Modelling and Optimization of Nonlinear Integrable Systems

Nonlinear integrable optics was recently proposed as a design approach to increase the limits on beam brightness and intensity imposed by fast collective instabilities. To study these systems experimentally, a new research electron and proton storage ring, the Integrable Optics Test Accelerator, was constructed and recently commissioned at Fermilab. Beam-based diagnostics and online modelling of nonlinear systems presents unique challenges - in this paper, we report on our efforts to develop optimization methods suited for such lattices. We explore the effectiveness of neural networks as fast online surrogate estimators, and integrate them into a beam-based tuning algorithm. We also develop a method of knob dimensionality reduction and subsequent robust multivariate optimization for maximizing key performance metrics under complicated lattice optics constraints.

43 PARTICLE ACCELERATORS↗

Symbolic diagnostics to interpret and analyze neural network models

Embedded machine-learned models (EMLMs) have the promise to improve the predictive accuracy of engineering simulators in environments of national interest. EMLMs often comprise complex input-output maps (e.g., neural networks), which make them unamenable to rigorous analysis and generally difficult to interpret. In the face of decades of theory, this lack of interpretability is a significant barrier to building confidence in these models. This work outlines an approach to interpret EMLMs using sparse polynomial regression for comparison with theoretical understanding. To do so, we build on the concept of Locally Interpretable Model-agnostic Explanations (LIME) using physics-informed clustering, prototype selection, and library construction. While general, we demonstrate our method on tensor-basis neural networks used in Reynolds-Averaged Navier-Stokes simulations of hypersonic fluid flows. Results are presented for a simulated toy model and for direct numerical simulations (DNS) of turbulent flows over a flat plate.

97 MATHEMATICS AND COMPUTING↗

Diagnostics of electron-heated solar flare models. III - Effects of tapered loop geometry and preheating

A series of hydrodynamic numerical simulations of nonthermal electron-heated solar flare atmospheres and their corresponding soft X-ray Ca XIX emission-line profiles, under the conditions of tapered flare loop geometry and/or a preheated atmosphere, is presented. The degree of tapering is parameterized by the magnetic mirror ratio, while the preheated atmosphere is parameterized by the initial upper chromospheric pressure. In a tapered flare loop, it is found that the upward motion of evaporated material is faster compared with the case where the flare loop is uniform. This is due to the diverging nozzle seen by the upflowing material. In the case where the flare atmosphere is preheated and the flare geometry is uniform, the response of the atmosphere to the electron collisional heating is slow. The upward velocity of the hydrodynamic gas is reduced due not only to the large coronal column depth, but also to the increased inertia of the overlying material. It is concluded that the only possible electron-heated scenario in which the predicted Ca XIX line profiles agree with the BCS observations is when the impulsive flare starts in a preheated dense corona.

Emslie, A. G.↗

Review of Diagnostics for Water Sources in General Circulation Models (GCMs)

We will describe the uses of passive tracers in GCMs to compute the geographical sources of water for precipitation. We will present a summary of recent research and how this methodology can be applied in climate and climate change studies. We will also discuss the possibility of using passive tracers in conjunction with simulations and observations of stable observations.

Bosilovich, M.↗

Diagnosing added value of convection-permitting regional models using precipitation event identification and tracking

Dynamical downscaling with high-resolution regional climate models may offer the possibility of realistically reproducing precipitation and weather events in climate simulations. As resolutions fall to order kilometers, the use of explicit rather than parametrized convection may offer even greater fidelity. However, these increased resolutions both allow and require increasingly complex diagnostics for evaluating model fidelity. Here we focus on precipitation evaluation and analyze five 2-month-long dynamically downscaled model runs over the continental United States that employ different convective and microphysics parameterizations, including one high-resolution convection-permitting simulation. All model runs use the Weather Research and Forecasting Model driven by National Center for Environmental Prediction reanalysis data. We show that employing a novel rainstorm identification and tracking algorithm that allocates essentially all rainfall to individual precipitation events allows new insights into model biases. Results include that, at least in these runs, model wet bias is driven by excessive areal extent of individual precipitating events, and that the effect is time-dependent, producing excessive diurnal cycle amplitude. This amplified cycle is driven not by new production of events but by excessive daytime enlargement of long-lived precipitation events. Here, we further show that in the domain average, precipitation biases appear best represented as additive offsets. Of all model configurations evaluated, convection-permitting simulations most consistently reduced biases in precipitation event characteristics.

54 ENVIRONMENTAL SCIENCES↗

Diagnosis and Prognosis of Weapon Systems

The Prognostics Framework is a set of software tools with an open architecture that affords a capability to integrate various prognostic software mechanisms and to provide information for operational and battlefield decision-making and logistical planning pertaining to weapon systems. The Prognostics NASA Tech Briefs, February 2005 17 Framework is also a system-level health -management software system that (1) receives data from performance- monitoring and built-in-test sensors and from other prognostic software and (2) processes the received data to derive a diagnosis and a prognosis for a weapon system. This software relates the diagnostic and prognostic information to the overall health of the system, to the ability of the system to perform specific missions, and to needed maintenance actions and maintenance resources. In the development of the Prognostics Framework, effort was focused primarily on extending previously developed model-based diagnostic-reasoning software to add prognostic reasoning capabilities, including capabilities to perform statistical analyses and to utilize information pertaining to deterioration of parts, failure modes, time sensitivity of measured values, mission criticality, historical data, and trends in measurement data. As thus extended, the software offers an overall health-monitoring capability.

Nolan, Mary↗

Reconstructing Subgrid Cloud Variability Guided by CloudSat/CALIPSO Observations

Predicting realistic cloud subgrid variability remains a challenge for Global Climate Models (GCMs) even though it can play an important role for proper representation of processes pertaining to cloud microphysics, precipitation, and radiation, but also for comparisons with satellite observations which are of much higher resolution than model grids. The diagnostic approach of subgrid cloud variability is commonly handled by subcolumn cloud generators. For a specific GCM, one ideally wants the subgrid variability used for comparisons with satellite observations to be created by the same generator and with the same rules as the one used for model integration. With this in mind, we have embarked in an effort to test and improve cloud subcolumn generators appropriate for GCMs. For this purpose, we use cloud (hydrometeor) products from active observations by the CloudSat radar (CPR) and the CALIPSO lidar (CALIOP). Cloud products from active sensors while suffering significant sampling and coverage drawbacks have the advantage of resolving both horizontal and vertical variability. The main question is: given a profile of cloud condensate mean and variance, can we create a subgrid cloud field that is statistically similar to the observed subgrid cloud field? By “statistically”, we suggest that we do not aspire to reproduce “well” each individual subgrid cloud field of a GCM-scale region, but that our generator performs well for a large ensemble of cases. We simulate radar, passive imager, and radiation flux fields from the observed 2D cloud fields and create one-point statistics; we use the profiles of cloud condensate mean and variance as input to the generator to create subgrid cloud fields; we compare the statistics; we adjust the rules of the generator to create the best possible agreement between the radar, imager and radiation field statistics. In this process, the active observations have actually a dual role: they provide the actual subgrid cloud field which can be reduced to a profile of mean and variance used by the subcolumn generator, but they also provide the rules needed by the generator, such as measures (e.g, decorrelation length) of the vertical overlap of cloud fraction and of the condensate horizontal variability. This presentation will show our progress using Cloudsat and CALIPSO products in this dual fashion.

cloud↗

Reconstructing Subgrid Cloud Variability Guided by CloudSat/CALIPSO Observations

Predicting realistic cloud subgrid variability remains a challenge for Global Climate Models (GCMs) even though it can play an important role for proper representation of processes pertaining to cloud microphysics, precipitation, and radiation, but also for comparisons with satellite observations which are of much higher resolution than model grids. The diagnostic approach of subgrid cloud variability is commonly handled by subcolumn cloud generators. For a specific GCM, one ideally wants the subgrid variability used for comparisons with satellite observations to be created by the same generator and with the same rules as the one used for model integration. With this in mind, we have embarked in an effort to test and improve cloud subcolumn generators appropriate for GCMs. For this purpose, we use cloud (hydrometeor) products from active observations by the CloudSat radar (CPR) and the CALIPSO lidar (CALIOP). Cloud products from active sensors while suffering signi􀂦cant sampling and coverage drawbacks have the advantage of resolving both horizontal and vertical variability. The main question is: given a profile of cloud condensate mean and variance, can we create a subgrid cloud field that is statistically similar to the observed subgrid cloud field? By “statistically”, we suggest that we do not aspire to reproduce “well” each individual subgrid cloud field of a GCM-scale region, but that our generator performs well for a large ensemble of cases. We simulate radar, passive imager, and radiation flux fields from the observed 2D cloud fields and create one-point statistics; we use the profiles of cloud condensate mean and variance as input to the generator to create subgrid cloud fields; we compare the statistics; we adjust the rules of the generator to create the best possible agreement between the radar, imager and radiation field statistics. In this process, the active observations have actually a dual role: they provide the actual subgrid cloud field which can be reduced to a profile of mean and variance used by the subcolumn generator, but they also provide the rules needed by the generator, such as measures (e.g, decorrelation length) of the vertical overlap of cloud fraction and of the condensate horizontal variability. This presentation will show our progress using Cloudsat and CALIPSO products in this dual fashion.

clouds↗

Spatial-Temporal Recurrent Graph Neural Networks for Fault Diagnostics in Power Distribution Systems

Fault diagnostics are extremely important to decide proper actions toward fault isolation and system restoration. The growing integration of inverter-based distributed energy resources imposes strong influences on fault detection using traditional overcurrent relays. This paper utilizes emerging graph learning techniques to build new temporal recurrent graph neural network models for fault diagnostics. The temporal recurrent graph neural network structures can extract the spatial-temporal features from data of voltage measurement units installed at the critical buses. From these features, fault event detection, fault type/phase classification, and fault location are performed. Compared with previous works, the proposed temporal recurrent graph neural networks provide a better generalization for fault diagnostics. Moreover, the proposed scheme retrieves the voltage signals instead of current signals so that there is no need to install relays at all lines of the distribution system. Therefore, the proposed scheme is generalizable and not limited by the number of relays installed. The effectiveness of the proposed method is comprehensively evaluated on the Potsdam microgrid and IEEE 123-node system in comparison with other neural network structures.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Statistical inference of anomalous thermal transport with uncertainty quantification for interpretive 2D SOL models

The critical task of inferring anomalous cross-field transport coefficients is addressed in simulations of boundary plasmas with fluid models. A workflow for parameter inference in the UEDGE fluid code is developed using Bayesian optimization with parallelized sampling and integrated uncertainty quantification. In this workflow, transport coefficients are inferred by maximizing their posterior probability distribution, which is generally multidimensional and non-Gaussian. Uncertainty quantification is integrated throughout the optimization within the Bayesian framework that combines diagnostic uncertainties and model limitations. As a concrete example, we infer the anomalous electron thermal diffusivity $\chi_\perp$ from an interpretive 2D model describing electron heat transport in the conduction-limited region with radiative power loss. The workflow is first benchmarked against synthetic data and then tested on H-, L-, and I-mode discharges to match their midplane temperature and divertor heat flux profiles. We demonstrate that the workflow efficiently infers diffusivity and its associated uncertainty, generating 2D profiles that match 1D measurements. Future efforts will focus on incorporating more complicated fluid models and analyzing transport coefficients inferred from a large database of experimental results.

Bayesian optimization↗

Sixth NASA Glenn Research Center Propulsion Control and Diagnostics (PCD) Workshop

The Intelligent Control and Autonomy Branch at NASA Glenn Research Center hosted the Sixth Propulsion Control and Diagnostics Workshop on August 22-24, 2017. The objectives of this workshop were to disseminate information about research being performed in support of NASA Aeronautics programs; get feedback from peers on the research; and identify opportunities for collaboration. There were presentations and posters by NASA researchers, Department of Defense representatives, and engine manufacturers on aspects of turbine engine modeling, control, and diagnostics.

Collaboration↗

Probabilistic machine learning for battery health diagnostics and prognostics—review and perspectives

Abstract Diagnosing lithium-ion battery health and predicting future degradation is essential for driving design improvements in the laboratory and ensuring safe and reliable operation over a product’s expected lifetime. However, accurate battery health diagnostics and prognostics is challenging due to the unavoidable influence of cell-to-cell manufacturing variability and time-varying operating circumstances experienced in the field. Machine learning approaches informed by simulation, experiment, and field data show enormous promise to predict the evolution of battery health with use; however, until recently, the research community has focused on deterministic modeling methods, largely ignoring the cell-to-cell performance and aging variability inherent to all batteries. To truly make informed decisions regarding battery design in the lab or control strategies for the field, it is critical to characterize the uncertainty in a model’s predictions. After providing an overview of lithium-ion battery degradation, this paper reviews the current state-of-the-art probabilistic machine learning models for health diagnostics and prognostics. Details of the various methods, their advantages, and limitations are discussed in detail with a primary focus on probabilistic machine learning and uncertainty quantification. Last, future trends and opportunities for research and development are discussed.

25 ENERGY STORAGE↗

Water Mass Transformation Budgets in Finite‐Volume Generalized Vertical Coordinate Ocean Models

Water Mass Transformation (WMT) theory provides conceptual tools that in principle enable innovative analyses of numerical ocean models; in practice, however, these methods can be challenging to implement and interpret, and therefore remain under-utilized. Our aim is to demonstrate the feasibility of diagnosing all terms in the water mass budget and to exemplify their usefulness for scientific inquiry and model development by quantitatively relating water mass changes, overturning circulations, boundary fluxes, and interior mixing. We begin with a pedagogical derivation of key results of classical WMT theory. We then describe best practices for diagnosing each of the water mass budget terms from the output of Finite-Volume Generalized Vertical Coordinate (FV-GVC) ocean models, including the identification of a non-negligible remainder term as the spurious numerical mixing due to advection scheme discretization errors. We illustrate key aspects of the methodology through the analysis of a polygonal region of the Greater Baltic Sea in a regional demonstration simulation using the Modular Ocean Model v6 (MOM6). We verify the convergence of our WMT diagnostics by brute-force, comparing time-averaged (“offline”) diagnostics on various vertical grids to timestep-averaged (“online”) diagnostics on the native model grid. Finally, we briefly describe a stack of xarray-enabled Python packages for evaluating WMT budgets in FV-GVC models (culminating in the new xwmb package), which is intended to be model-agnostic and available for community use and development.

54 ENVIRONMENTAL SCIENCES↗

Modeling the 3-D structure of ignition experiments at the NIF

This study details a model used to infer the 3-D structure of the stagnated hot-spot and shell of inertial confinement fusion implosion experiments at the National Ignition Facility. The model assumes that 3-D low-mode drive perturbations can account for the majority of stagnation asymmetries experimentally observed. It uses an adaptive sampling algorithm to navigate the 24-D input parameter space to find a 3-D x-ray flux asymmetry whose application to an otherwise symmetric implosion results in a consistent match between synthetic and experimental diagnostic observables. The model is applied to a series of experiments and is able to achieve a consistent match for over 41 different observables, providing a high-fidelity reconstruction of the stagnation hot-spot and shell profile.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗