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Ensemble Cancer Risk Model for Astronaut Risk Assessment

A new approach to NASA space radiation risk modeling has successfully extended the current NASA probabilistic cancer risk model to an ensemble framework able to consider sub-model parameter uncertainty (e.g. uncertainty in a radiation quality parameter) as well as model-form uncertainty associated with differing theoretical or empirical formalisms (e.g. combined dose-rate and radiation quality effects). Ensemble methodologies are already widely used in weather prediction, modeling of infectious disease outbreaks, and certain terrestrial radiation protection applications to better understand how uncertainty may influence risk decision-making. Applying ensemble methodologies to space radiation risk projections offers the potential to efficiently incorporate emerging research results, allow for the incorporation of future (including international) models, improve uncertainty quantification for underlying sub-models developed against sparse experimental data, and reduce the impact of subjective bias on risk projections. Moreover, risk forecasting across an ensemble of multiple predictive models can provide stakeholders additional information on risk acceptance if current health/medical standards cannot be met or the level of knowledge doesn’t permit a specific risk or exposure limit to be developed for future space exploration missions. In this work, ensemble risk projections implementing multiple sub-models of radiation quality, dose and dose-rate effectiveness factors, excess risk, and latency as ensemble members are presented. Initial consensus methods for ensemble model weights and correlations to account for individual model bias are discussed. In these analyses, the ensemble forecast compares well to results from NASA's current operational cancer risk projection model used to assess permissible exposure limits and permissible mission durations for astronauts. However, a large range of projected risk values are obtained at the upper 95th confidence level where models must extrapolate beyond available biological data sets; closer agreement is seen at the median + one sigma due to the inherent similarities in available models. Future work, including the addition of new models and methods for statistical correlation between predictive members are discussed to define alternate ways of thinking about risk and ‘acceptable’ uncertainty with respect to NASA’s current permissible exposure limits.

Lisa C Simonsen↗

NASA NTRS2009

Performance of Trajectory Models with Wind Uncertainty

Typical aircraft trajectory predictors use wind forecasts but do not account for the forecast uncertainty. A method for generating estimates of wind prediction uncertainty is described and its effect on aircraft trajectory prediction uncertainty is investigated. The procedure for estimating the wind prediction uncertainty relies uses a time-lagged ensemble of weather model forecasts from the hourly updated Rapid Update Cycle (RUC) weather prediction system. Forecast uncertainty is estimated using measures of the spread amongst various RUC time-lagged ensemble forecasts. This proof of concept study illustrates the estimated uncertainty and the actual wind errors, and documents the validity of the assumed ensemble-forecast accuracy relationship. Aircraft trajectory predictions are made using RUC winds with provision for the estimated uncertainty. Results for a set of simulated flights indicate this simple approach effectively translates the wind uncertainty estimate into an aircraft trajectory uncertainty. A key strength of the method is the ability to relate uncertainty to specific weather phenomena (contained in the various ensemble members) allowing identification of regional variations in uncertainty.

Lee, Alan G.↗

DOE OSTI2020

Machine learning enabled discovery of application dependent design principles for two-dimensional materials

Abstract The unique electronic and mechanical properties of two-dimensional (2D) materials make them promising next-generation candidates for a variety of applications. Large-scale searches for high-performing 2D materials are limited to calculating descriptors with computationally demanding first-principles density functional theory. In this work, we alleviate this issue by extending and generalizing crystal graph convolutional neural networks to systems with planar periodicity and train an ensemble of models to predict thermodynamic, mechanical and electronic properties. We carry out a screening of nearly 45,000 structures for two separate applications: mechanical strength and photovoltaics. By collecting statistics of the screened candidates, we investigate structural and compositional design principles that impact the properties of the structures surveyed. Our approach recovers some well-accepted design rules: hybrid organic-inorganic perovskites with lead and tin tend to be good candidates for solar cell applications and titanium based MXenes usually have high stiffness coefficients. Interestingly, other members of the group 4 elements also contribute to increasing the mechanical strength of MXenes. For all-inorganic perovskites, we discover some compositions that have not been deeply studied in the field of photovoltaics and thus open up paths for further investigation. We open-source the code-base to spur further development in this space.

Venturi, Victor (ORCID:0000000156727549)↗

DOE OSTI2022

Transient local secondary structure in the intrinsically disordered C‐term of the Albino3 insertase

Albino3 (Alb3) is an integral membrane protein fundamental to the targeting and insertion of light‐harvesting complex (LHC) proteins into the thylakoid membrane. Alb3 contains a stroma‐exposed C‐terminus (Alb3‐Cterm) that is responsible for binding the LHC‐loaded transit complex before LHC membrane insertion. Alb3‐Cterm has been reported to be intrinsically disordered, but precise mechanistic details underlying how it recognizes and binds to the transit complex are lacking, and the functional roles of its four different motifs have been debated. Using a novel combination of experimental and computational techniques such as single‐molecule fluorescence resonance energy transfer, circular dichroism with deconvolution analysis, site‐directed mutagenesis, trypsin digestion assays, and all‐atom molecular dynamics simulations in conjunction with enhanced sampling techniques, we show that Alb3‐Cterm contains transient secondary structure in motifs I and II. The excellent agreement between the experimental and computational data provides a quantitatively consistent picture and allows us to identify a heterogeneous structural ensemble that highlights the local and transient nature of the secondary structure. This structural ensemble was used to predict both the inter‐residue distance distributions of single molecules and the apparent unfolding free energy of the transient secondary structure, which were both in excellent agreement with those determined experimentally. We hypothesize that this transient local secondary structure may play an important role in the recognition of Alb3‐Cterm for the LHC‐loaded transit complex, and these results should provide a framework to better understand protein targeting by the Alb3‐Oxa1‐YidC family of insertases.

Okoto, Patience S.↗

DOE OSTI2023

Uncertainty-quantified phenomenological optical potentials for single-nucleon scattering

Optical-model potentials (OMPs) continue to play a key role in nuclear reaction calculations. However, the uncertainty of phenomenological OMPs in widespread use—inherent to any parametric model trained on data—has not been fully characterized, and its impact on downstream users of OMPs remains unclear. Here we assign well-calibrated uncertainties for two representative global OMPs, those of Koning-Delaroche and Chapel Hill '89, using Markov-chain Monte Carlo for parameter inference. By comparing the canonical versions of these OMPs against the experimental data originally used to constrain them, we show how a lack of outlier rejection and a systematic underestimation of experimental uncertainties contributes to bias of, and overconfidence in, best-fit parameter values. Our updated, uncertainty-quantified versions of these OMPs address these issues and yield complete covariance information for potential parameters. Scattering predictions generated from our ensembles show improved performance both against the original training corpora of experimental data and against a new “test” corpus comprising many of the experimental single-nucleon scattering data collected over the last twenty years. Finally, we apply our uncertainty-quantified OMPs to two case studies of application-relevant cross sections. We conclude that, for many common applications of OMPs, including OMP uncertainty should become standard practice. Furthermore, to facilitate their immediate use, digital versions of our updated OMPs and related tools for forward uncertainty propagation are included as Supplemental Material.

150 ≤ A ≤ 189↗

DOE OSTI2021

CERES: CRISPR Engineering for the Rapid Enhancement of Strains

Previous strain development efforts for cyanobacteria have failed to achieve the necessary productivities needed to support economic biofuel production. We proposed to develop CRISPR Engineering for Rapid Enhancement of Strains (CERES). We developed genetic and computational tools to enable future high-throughput screening of CRISPR interference (CRISPRi) libraries in the cyanobacterium Synechococcus sp. PCC 7002, including: (1) Operon- SEQer: an ensemble of algorithms for predicting operon pairs using RNA-seq data, (2) experimental characterization and machine learning prediction of gRNA design rules for CRISPRi, and (3) a shuttle vector for gene expression. These tools lay the foundation for CRISPR library screening to develop cyanobacterial strains that are optimized for growth or metabolite production under a wide range of environmental conditions. The optimization of cyanobacterial strains will directly advance U.S. energy and climate security by enabling domestic biofuel production while simultaneously mitigating atmospheric greenhouse gases through photoautotrophic fixation of carbon dioxide.

09 BIOMASS FUELS↗

DOE OSTI2022

Predicting peak day and peak hour of electricity demand with ensemble machine learning

Battery energy storage systems can be used for peak demand reduction in power systems, leading to significant economic benefits. Two practical challenges are 1) accurately determining the peak load days and hours and 2) quantifying and reducing uncertainties associated with the forecast in probabilistic risk measures for dispatch decision-making. In this study, we develop a supervised machine learning approach to generate 1) the probability of the next operation day containing the peak hour of the month and 2) the probability of an hour to be the peak hour of the day. Guidance is provided on preparation and augmentation of data as well as selection of machine learning models and decision-making thresholds. The proposed approach is applied to the Duke Energy Progress system and successfully captures 69 peak days out of 72 testing months with a 3% exceedance probability threshold. On 90% of the peak days, the actual peak hour is among the 2 h with the highest probabilities.

25 ENERGY STORAGE↗

DOE OSTI2022

CLM5 CAMELS Basins Ensemble

Land surface models such as Community Land Model Version 5 (CLM5) are essential tools for simulating the behaviors of the terrestrial system. Despite the extensive application of CLM5, limited attention has been paid to the underlying uncertainties associated with its hydrologic parameters and the implications that these uncertainties have on water resources applications. To address this long-standing issue, we conduct a comprehensive hydrologic parameter uncertainty characterization (UC) of CLM5 over the hydroclimatic gradients of the Conterminous United States using five meteorological datasets. Key datasets produced from the UC experiment include a benchmark dataset of CLM5 default hydrological performance, parameter sensitivity identified for 28 hydrological metrics, and large ensemble outputs for hydrological predictions. The presented datasets can assist CLM5 calibration and to support broad applications such as evaluating vulnerabilities to droughts and floods. The dataset can be used to identify under what hydroclimate conditions parametric uncertainties demonstrate substantial effects on hydrological predictions and clarify where further investigations are needed to understand how land runoff uncertainties interact with other Earth system processes. Please refer to the included README.pdf for a description of the included files. Note that raw CLM5 model outputs for each forcing dataset are hosted on a Globus endpoint: https://app.globus.org/file-manager?destination_id=d22ef858-27b0-11ed-a910-fd3165076336.

Yan, Hongxiang↗

DOE OSTI2023

CLM5 CAMELS Basins Ensemble

Land surface models such as Community Land Model Version 5 (CLM5) are essential tools for simulating the behaviors of the terrestrial system. Despite the extensive application of CLM5, limited attention has been paid to the underlying uncertainties associated with its hydrologic parameters and the implications that these uncertainties have on water resources applications. To address this long-standing issue, we conduct a comprehensive hydrologic parameter uncertainty characterization (UC) of CLM5 over the hydroclimatic gradients of the Conterminous United States using five meteorological datasets. Key datasets produced from the UC experiment include a benchmark dataset of CLM5 default hydrological performance, parameter sensitivity identified for 28 hydrological metrics, and large ensemble outputs for hydrological predictions. The presented datasets can assist CLM5 calibration and to support broad applications such as evaluating vulnerabilities to droughts and floods. The dataset can be used to identify under what hydroclimate conditions parametric uncertainties demonstrate substantial effects on hydrological predictions and clarify where further investigations are needed to understand how land runoff uncertainties interact with other Earth system processes. Please refer to the README.pdf for a description of the included files. Note that raw CLM5 model outputs for each forcing dataset are hosted on a Globus endpoint: https://app.globus.org/file-manager?destination_id=d22ef858-27b0-11ed-a910-fd3165076336.

Yan, Hongxiang↗

NASA NTRS1973

Statistical mechanics of negative temperature states

The dynamics of two-dimensional interacting line vortices is identical to that of the two-dimensional electrostatic guiding center plasma. Both are Hamiltonian systems and are therefore susceptible to statistical mechanical treatments. The predictions of the microcanonical ensemble are explored for this system. Interest focuses primarily on the regime of total positive interaction energy, which should be above the Onsager negative temperature threshold. Calculations of the probability distribution for a component by means of the central limit theorem are carried out in the manner of Khinchin. The probability distribution of a component reduced to the usual Gibbs distribution in the regime of positive temperatures, and is still explicitly calculable for negative temperatures. The negative temperature states are neither quiescent nor spatially uniform. Expressions for the temperature are explicitly provided in terms of the total particle energy and particle number. A BBGKY hierarchy can be derived for both temperature regimes. Numerical simulations involving solutions of the equations of motion of 4008 particles are presented.

Montgomery, D. C.↗

DOE OSTI2024

Evaluating the Importance of Conformers for Understanding the Vacuum-Ultraviolet Spectra of Oxiranes: Experiment and Theory

Vacuum-ultraviolet (VUV) absorption spectroscopy enables electronic transitions that offer the unambiguous identification of molecules. As target molecules become more complex, multifunctional species present a great challenge to both experimental and computational spectroscopy. This research reports both experimental and theoretical studies of oxiranes. Computationally, the nuclear ensemble approach has been used to accurately predict experimental spectra for a variety of molecules. However, this approach incurs great computational cost, as ensembles generally consist of thousands of geometries. The present study aims to drastically reduce the ensemble by evaluating the significance of the conformers to the predicted spectra. This approach was applied to 11 substituted oxiranes using the Conformer Rotamer Ensemble Sampling Tool (CREST) of Grimme to generate an ensemble of unique conformers determined by their Boltzmann populations. Five TD-DFT functionals (BMK, CAM-B3LYP, M06-2X, MN15, ωB97X-D) and EOM-CCSD were used to simulate the spectrum of each substituted oxirane ensemble. Computed spectra were then compared to the experiment using both qualitative and quantitative metrics. Based on these metrics, it was observed that certain conformers may not be necessary to characterize this set of oxiranes despite the temperature (323 K) of the experiment. A single conformer can then be used with TD-DFT and EOM-CCSD to replicate the experimental spectra of these medium-sized combustion species.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

NASA NTRS2012

Assessment of the APCC Coupled MME Suite in Predicting the Distinctive Climate Impacts of Two Flavors of ENSO during Boreal Winter

Forecast skill of the APEC Climate Center (APCC) Multi-Model Ensemble (MME) seasonal forecast system in predicting two main types of El Nino-Southern Oscillation (ENSO), namely canonical (or cold tongue) and Modoki ENSO, and their regional climate impacts is assessed for boreal winter. The APCC MME is constructed by simple composite of ensemble forecasts from five independent coupled ocean-atmosphere climate models. Based on a hindcast set targeting boreal winter prediction for the period 19822004, we show that the MME can predict and discern the important differences in the patterns of tropical Pacific sea surface temperature anomaly between the canonical and Modoki ENSO one and four month ahead. Importantly, the four month lead MME beats the persistent forecast. The MME reasonably predicts the distinct impacts of the canonical ENSO, including the strong winter monsoon rainfall over East Asia, the below normal rainfall and above normal temperature over Australia, the anomalously wet conditions across the south and cold conditions over the whole area of USA, and the anomalously dry conditions over South America. However, there are some limitations in capturing its regional impacts, especially, over Australasia and tropical South America at a lead time of one and four months. Nonetheless, forecast skills for rainfall and temperature over East Asia and North America during ENSO Modoki are comparable to or slightly higher than those during canonical ENSO events.

Jeong, Hye-In↗

NASA NTRS1999

Seasonal Predictions with the GEOS GCM

A number of ensembles of seasonal forecasts have recently been completed as part of NASA's Seasonal to Interannual Prediction Project (NSIPP). The focus is on the extratropical response of the atmosphere to observed Surface Sea Temperature (SST) anomalies during boreal winter. The prediction experiments consist of nine forecasts starting from slightly different initial conditions for each year of the 15 year period 1981-95, employing version 2 of the Goddard Earth Observing System (GEOS) atmospheric Global Circulation Models (GCM). The initial conditions are obtained from the NASA GEOS-1 reanalysis data. Comparisons with a companion set of six long-term simulations with observed SST (starting in 1978, so they have no memory of the initial conditions for the periods of interest) are used to assess the relative contributions of the initial conditions and SST anomalies to forecast skill ranging from daily to seasonal time scales. The ensembles are used to isolate the signal, and to assess the nature of the inherent variability (noise) of the forecasts.

Schubert, Siegfried↗

NASA NTRS1999

Seasonal Prediction with the GEOS GCM

Suarez, Max↗

NASA NTRS2018

Physics-Based Approach to Predict the Solar Activity Cycles

Observations of the complex highly non-linear dynamics of global turbulent flows and magnetic fields are currently available only from Earth-side observations. Recent progress in helioseismology has provided us some additional information about the subsurface dynamics, but its relation to the magnetic field evolution is not yet understood. These limitations cause uncertainties that are difficult take into account, and perform proper calibration of dynamo models. The current dynamo models have also uncertainties due to the complicated turbulent physics of magnetic field generation, transport and dissipation. Because of the uncertainties in both observations and theory, the data assimilation approach is natural way for the solar cycle prediction and estimating uncertainties of this prediction. I will discuss the prediction results for the upcoming Solar Cycle 25 and their uncertainties and affect of Ensemble Kalman Filter parameters to resulting predictions.

Physics-Based↗

DOE OSTI2021

Assessing boundary condition and parametric uncertainty in numerical-weather-prediction-modeled, long-term offshore wind speed through machine learning and analog ensemble

To accurately plan and manage wind power plants, not only does the time-varying wind resource at the site of interest need to be assessed but also the uncertainty connected to this estimate. Numerical weather prediction (NWP) models at the mesoscale represent a valuable way to characterize the wind resource offshore, given the challenges connected with measuring hub-height wind speed. The boundary condition and parametric uncertainty associated with modeled wind speed is often estimated by running a model ensemble. However, creating an NWP ensemble of long-term wind resource data over a large region represents a computational challenge. Here, we propose two approaches to temporally extrapolate wind speed boundary condition and parametric uncertainty using a more convenient setup in which a mesoscale ensemble is run over a short-term period (1 year), and only a single model covers the desired long-term period (20 year). We quantify hub-height wind speed boundary condition and parametric uncertainty from the short-term model ensemble as its normalized across-ensemble standard deviation. Then, we develop and apply a gradient-boosting model and an analog ensemble approach to temporally extrapolate such uncertainty to the full 20-year period, for which only a single model run is available. As a test case, we consider offshore wind resource characterization in the California Outer Continental Shelf. Both of the proposed approaches provide accurate estimates of the long-term wind speed boundary condition and parametric uncertainty across the region (R 2 >0.75), with the gradient-boosting model slightly outperforming the analog ensemble in terms of bias and centered root-mean-square error. At the three offshore wind energy lease areas in the region, we find a long-term median hourly uncertainty between 10 % and 14 % of the mean hub-height wind speed values. Finally, we assess the physical variability in the uncertainty estimates. In general, we find that the wind speed uncertainty increases closer to land. Also, neutral conditions have smaller uncertainty than the stable and unstable cases, and the modeled wind speed in winter has less boundary condition and parametric sensitivity than summer.

17 WIND ENERGY↗

DOE OSTI2025

Uncertainty based Online Ensemble on Non-Stationary Data for Fusion Science

Machine Learning (ML) is poised to play a pivotal role in the development and operation of next-generation fusion devices. Fusion data shows non-stationary behavior due to drifts in the data. The drifts can arise from both experimental evolution and machine wear-and-tear. ML models assume stationary distribution and fail to maintain performance when encountered with non-stationary data streams.Online learning can be used to continuously adapt the models with new data as it is acquired. However, traditional online learning can suffer from short-term performance degradation, as ground truth are not available before making the prediction. To address this challenge, we propose uncertainty aware ensemble approach for online learning. We use Deep Gaussian Process Approximation (DGPA) technique for calibrated uncertainty estimation and use the uncertainty values to guide a meta-algorithm that produces predictions based on ensemble of learners. Moreover, DGPA also provides uncertainty estimation along with the predictions for decision makers. This paper demonstrates that the proposed method outperforms traditional online learning approach, and a naive ensemble without uncertainty guidance by about 7% and 6%, respectively, on B-coil deflection prediction at DIII-D Fusion Facility.

Rajput, Kishansingh [Thomas Jefferson National Acc↗

DOE OSTI2025

Uncertainty based Online Ensemble on Non-Stationary Data for Fusion Science

Rajput, Kishansingh [Thomas Jefferson National Acc↗