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At least 1,117 records · Page 62

Multitask graph neural networks for elastoplastic response prediction in dual-phase polycrystals

Microstructure-sensitive prediction of elastoplastic response remains a recurring bottleneck in multiscale damage and fatigue modeling, where large ensembles of statistically distinct polycrystals are required to quantify variability and extreme-value behavior. In this work, we develop a multitask graph neural network (GNN) surrogate that maps dual-phase ferrite–martensite polycrystal microstructures to Statistical Volume Element (SVE)-level elastoplastic Quantities of Interest (QoIs). Each SVE is represented as a grain-adjacency graph, with node features encoding phase, geometry, and crystallographic orientation, and edge features encoding relative misorientation. A message-passing graph convolution generates node embeddings, which are pooled into a graph representation and passed to a multitask regression head that jointly predicts 10 scalar QoIs and vector-valued stress–strain responses in orthogonal loading directions across multiple martensite volume fractions and SVE sizes. Results show high accuracy for scalar QoIs and strong agreement for full stress–strain trajectories, with population envelopes reproducing both median behavior and finite-SVE variability across compositions and partition scales. A unified model trained on pooled volume-fraction data preserves most within-regime accuracy relative to regime-specific models while also capturing the broader cross-regime variation reflected in the pooled test set. Distributional comparisons further demonstrate that the surrogate preserves heterogeneity under SVE partitioning, enabling statistically consistent block-wise random-field construction for mesoscale analyses. Overall, the proposed grain-graph surrogate provides a practical pathway to accelerate ensemble-based studies of SVE-level constitutive variability in dual-phase polycrystals.

Crystal plasticity↗

Development of Software to Model AXAF-I Image Quality

This draft final report describes the work performed under the delivery order number 145 from May 1995 through August 1996. The scope of work included a number of software development tasks for the performance modeling of AXAF-I. A number of new capabilities and functions have been added to the GT software, which is the command mode version of the GRAZTRACE software, originally developed by MSFC. A structural data interface has been developed for the EAL (old SPAR) finite element analysis FEA program, which is being used by MSFC Structural Analysis group for the analysis of AXAF-I. This interface utility can read the structural deformation file from the EAL and other finite element analysis programs such as NASTRAN and COSMOS/M, and convert the data to a suitable format that can be used for the deformation ray-tracing to predict the image quality for a distorted mirror. There is a provision in this utility to expand the data from finite element models assuming 180 degrees symmetry. This utility has been used to predict image characteristics for the AXAF-I HRMA, when subjected to gravity effects in the horizontal x-ray ground test configuration. The development of the metrology data processing interface software has also been completed. It can read the HDOS FITS format surface map files, manipulate and filter the metrology data, and produce a deformation file, which can be used by GT for ray tracing for the mirror surface figure errors. This utility has been used to determine the optimum alignment (axial spacing and clocking) for the four pairs of AXAF-I mirrors. Based on this optimized alignment, the geometric images and effective focal lengths for the as built mirrors were predicted to cross check the results obtained by Kodak.

Ahmad, Anees↗

Linking Spatiotemporal Biological Data to Predict Harmful Algal Blooms

Cyanobacterial Harmful Algal Blooms (cHABs) have significant impacts on an affected region’s economy, ecology, and human health. The blooms can release toxins that kill fish and poison water for people and animals. The global adverse effects of cHABs are exacerbated by the consequences of climate change and increased pollution. Though the phenomena are well documented, scientists’ efforts to mitigate the damage are hampered by insufficient predictive models and incomplete granular knowledge of cHAB community structure. With a goal of leveraging bioinformatics and machine learning tools to better understand and predict cHABs, we are first exploring water sample data sets. Using nearly four thousand samples from the National Center for Biotechnology Information Sequence Read Archive (NCBI-SRA) across 16 years with latitude and longitude embedded in the metadata, we mapped the location of the samples onto a Lake Erie shape file. We combined information about location, date, and community taxa in the NCBI samples to discover factors that determine cHAB features. The data are separated into three distinct zones, with the majority pooled at the southwest end of the lake and occurring in 2017. The samples are rich in biological data; our next steps are to carry out whole genome sequence analysis and use the community profiles as part of our predictive machine learning model.

59 BASIC BIOLOGICAL SCIENCES↗

Transporter annotations are holding up progress in metabolic modeling

Mechanistic, constraint-based models of microbial isolates or communities are a staple in the metabolic analysis toolbox, but predictions about microbe-microbe and microbe-environment interactions are only as good as the accuracy of transporter annotations. A number of hurdles stand in the way of comprehensive functional assignments for membrane transporters. These include general or non-specific substrate assignments, ambiguity in the localization, directionality and reversibility of a transporter, and the many-to-many mapping of substrates, transporters and genes. In this perspective, we summarize progress in both experimental and computational approaches used to determine the function of transporters and consider paths forward that integrate both. Investment in accurate, high-throughput functional characterization is needed to train the next-generation of predictive tools toward genome-scale metabolic network reconstructions that better predict phenotypes and interactions. More reliable predictions in this domain will benefit fields ranging from personalized medicine to metabolic engineering to microbial ecology.

Casey, John↗

Adaptive 3D convolutional neural network-based reconstruction method for 3D coherent diffraction imaging

We present a novel adaptive machine-learning based approach for reconstructing three-dimensional (3D) crystals from coherent diffraction imaging. We represent the crystals using spherical harmonics (SH) and generate the corresponding synthetic diffraction patterns. We utilize 3D convolutional neural networks (CNNs) to learn a mapping between 3D diffraction volumes and the SH, which describe the boundary of the physical volumes from which they were generated. We use the 3D CNN-predicted SH coefficients as the initial guesses, which are then fine-tuned using adaptive model-independent feedback for improved accuracy. We also adaptively tune the locations, intensities, and decay rates of collections of radial basis functions in order to reproduce the non-uniform internal structure of 3D objects and demonstrate the method for a synthetic volume that has an internal void and a density ramp.

36 MATERIALS SCIENCE↗

ForceGen: End-to-end de novo protein generation based on nonlinear mechanical unfolding responses using a language diffusion model

Through evolution, nature has presented a set of remarkable protein materials, including elastins, silks, keratins and collagens with superior mechanical performances that play crucial roles in mechanobiology. However, going beyond natural designs to discover proteins that meet specified mechanical properties remains challenging. Here, we report a generative model that predicts protein designs to meet complex nonlinear mechanical property-design objectives. Our model leverages deep knowledge on protein sequences from a pretrained protein language model and maps mechanical unfolding responses to create proteins. Via full-atom molecular simulations for direct validation, we demonstrate that the designed proteins are de novo, and fulfill the targeted mechanical properties, including unfolding energy and mechanical strength, as well as the detailed unfolding force-separation curves. Our model offers rapid pathways to explore the enormous mechanobiological protein sequence space unconstrained by biological synthesis, using mechanical features as the target to enable the discovery of protein materials with superior mechanical properties.

59 BASIC BIOLOGICAL SCIENCES↗

PV Generation and Load Forecasting for Adjuntas PR Community Microgrids

Existing frameworks to forecast time-series photovoltaic (PV) output power and consumer load for microgrid operations and controls assume a near-continuous availability of real-time input features from the field assets such as PV inverters, energy meters, and weather station. These incoming data points are used to periodically retrain models and update forecast snapshots over a moving horizon window, be it one hour-ahead, one-day ahead, or one-week ahead. However, such frameworks are not resilient to disruptions in data availability caused by losses in communications between the field sensors and data loggers. Hence, there is a need for programs that assume no availability of real-time microgrid asset data and still make reliable forecasts that can be used for decision-making. Such programs would be apt to function in extreme weather events such as hurricanes and would use lightweight recursive time-series models to independently forecast solar irradiance and ambient temperature, then compute PV power from those forecasts, as well as independently forecast consumer load. The codebase performs forecasting for the scenario of when the microgrid does not have a reliable access to forecasts or real-time observations of solar irradiance (I) and ambient temperature (AT) and load (Load) to be able to adequately forecast, in real-time, the PV power production or a business' load. In this case, using historical values of PV power and load, a univariate forecasting of generation and consumption are respectively made. The use-case in particular has two sub-scenarios: one, a normal 7-day ahead forecast where the unavailability of real-time data is assumed due to infrastructure issues such as loss of communication or sensor maintenance or service downtimes. Whereas a hurricane-caused unavailability of real-time data requires a second model trained specifically on historical hurricane days to be able to capture the extreme day behavior of generation in particular, and load if applicable. A gradient boosted regression tree comprises an ensemble of additive models that map between the input of historical values (be it irradiance, temperature, or load) and their corresponding output forecasts of a given horizon such that the individual learner predictions are summed up over the total number of such learners in the ensemble to produce an aggregate forecast. A weighting mechanism is applied to the training data in each iteration, where actual and forecast values are compared to penalize incorrect forecasts by increasing the weight and reducing it to reward correct forecasts. The code's benefits are that it: (a) accounts for a contingency where communication loss renders newly measured real-time data unavailable for model tuning and snapshot updates; (b) presents blind forecasting that recursively determines the next time-step value in a horizon using the forecast of the same attribute from a prior step; and (c) employs lightweight models that, once trained, can reliably generalize for different horizons, which make them suitable for enhancing the resilience of field microgrids prone to extreme events that encounter disruptions to data availability.

Sundararajan, Aditya [Oak Ridge National Laborator↗

Draft genome of multiple resistance donor plant Sinapis alba: An insight into SSRs, annotations and phylogenetics

Sinapis alba is a wild member of the Brassicaceae family reported to possess genetic resistance against major biotic and abiotic stresses of oilseed brassicas. However, the resistance nature of S. alba was not exploited generously due to the unavailability of usable genome sequences in public databases. Therefore, the present study was conducted to assemble the first draft genome from raw whole genome shotgun sequences with annotation and develop simple sequence repeat markers for molecular genetics and marker-assisted breeding. Results The raw genome sequences had 96x coverage on the Illumina platform with 170 Gbp data. The developed assembly by SOAPdenovo2 has ~459 Mbp genome size covered in 403,423 contigs with an average size of 1138.04 bp. The assembly was BLASTX with Arabidopsis thaliana which showed 32.9% positive hits between both plants. The top hit species distribution analysis showed the highest similarity with A. thaliana. A total of 809,597 GO level annotations were recorded after BLASTX results, and 34,012 sequences were annotated with different enzyme codes grouped under seven classes. The gene prediction tool AUGUSTUS identified 113,107 probable genes with an average size of 684 bp. The biochemical pathway annotation assigned 16,119 potential genes to 152 KEGG maps and 1751 enzyme codes. The development of potential SSRs from the de-novo assembly yielded 70731 unique primer pairs. Out of 159 randomly selected SSR markers for validation, 149 successfully amplified in S. alba. However, 10 SSR markers did not amplify during the validation experiment. Conclusion The annotated genome assembly with a large number of SSRs was developed in the present study. To the best of our knowledge, this is the first report of S. alba genome assembly development, annotation, and SSRs mining to date. The data presented here will be a very important resource for future crop improvement programs, especially for resistant breeding.

59 BASIC BIOLOGICAL SCIENCES↗

Consortium for Production of Affordable Carbon Fibers in the United States (Final Report)

Various feedstocks from coal, petroleum and bio-based acrylonitrile were investigated for their ability to produce carbon fiber within DOE strength (250 ksi), modulus (25 Msi), elongation (>1%) and cost (≤$5/lb) goals for wider utilization in light-weight vehicles for the automotive industry. The overarching approach was to chemically identify and map the various feedstocks, understand the molecular transformation to produce carbon fiber precursors (mesophase for pitch materials of polyacrylonitrile polymer) and how these impact carbon fiber quality. Predictive models were built to relate the feedstocks and precursors to carbon fiber properties using atomistic and micro-scale modeling within ±15%. Using tow-level carbon fiber epoxy composites, carbon fibers tow-level predictions of elastic components of the carbon fibers were also successfully modeled within ±15%, using finite element analysis to confirm single filament carbon fiber properties. These models were validated with tow-level epoxy composite experiments from carbon fibers produced in this study.

01 COAL, LIGNITE, AND PEAT↗

Mapping Nitrogen Pathways in Organic Manure through GCAM

As the world has become more and more globalized, a need for a comprehensive and extensive modelling system that maps out the vast majority of processes and items around the world and can display how interdependent they are. Furthermore, such a model should be able to predict future processes and values such that it can guide scientific thinking and policy. This is where the importance of GCAM becomes so apparent. GCAM, the Global Change Analysis Model, that incorporates many different fields and can predict such a wide variety of processes. As the model expands and encompasses more fields and goes into greater detail, there is a need for previously incorporated processes to be further fleshed out. My project is dedicated to creating the organic nitrogen fertilizer pathway, such that there are two nitrogen fertilizer pathways, synthetic and organic (manure). Previously, only synthetic fertilizer was included, with all organic fertilizer (manure) being omitted from the model. Developing the synthetic path is relatively easy, as the process for creating synthetic fertilizer is an industrial process that has been perfected over decades, and thus has a very precise input/output coefficient of nitrogen, but determining that same coefficient for organic manure is much harder, because, well, digestion is not an industrial process, especially considering the many different types of animals have different processes, and a good amount of the manure they produce won’t be applied to the soil. I obtained data from the UN’s FAO on manure nitrogen applied to soil, and filled in the gaps and created many different visualizations to help comprehend the data. These findings will foster a greater understanding of nitrogen flows, which is crucial to fields like industrial agriculture, polluting runoff, and nitrifying bacteria and archaea in the soil.

54 ENVIRONMENTAL SCIENCES↗

Benchmarking and parameter sensitivity of physiological and vegetation dynamics using the Functionally Assembled Terrestrial Ecosystem Simulator (FATES) at Barro Colorado Island, Panama

Plant functional traits determine vegetation responses to environmental variation, but variation in trait values is large, even within a single site. Likewise, uncertainty in how these traits map to Earth system feedbacks is large. We use a vegetation demographic model (VDM), the Functionally Assembled Terrestrial Ecosystem Simulator (FATES), to explore parameter sensitivity of model predictions, and comparison to observations, at a tropical forest site: Barro Colorado Island in Panama. We define a single 12-dimensional distribution of plant trait variation, derived primarily from observations in Panama, and define plant functional types (PFTs) as random draws from this distribution. We compare several model ensembles, where individual ensemble members vary only in the plant traits that define PFTs, and separate ensembles differ from each other based on either model structural assumptions or non-trait, ecosystem-level parameters, which include (a) the number of competing PFTs present in any simulation and (b) parameters that govern disturbance and height-based light competition. While single-PFT simulations are roughly consistent with observations of productivity at Barro Colorado Island, increasing the number of competing PFTs strongly shifts model predictions towards higher productivity and biomass forests. Different ecosystem variables show greater sensitivity than others to the number of competing PFTs, with the predictions that are most dominated by large trees, such as biomass, being the most sensitive. Changing disturbance and height-sorting parameters, i.e., the rules of competitive trait filtering, shifts regimes of dominance or coexistence between early- and late-successional PFTs in the model. Increases to the extent or severity of disturbance, or to the degree of determinism in height-based light competition, all act to shift the community towards early-successional PFTs. In turn, these shifts in competitive outcomes alter predictions of ecosystem states and fluxes, with more early-successional-dominated forests having lower biomass. It is thus crucial to differentiate between plant traits, which are under competitive pressure in VDMs, from those model parameters that are not and to better understand the relationships between these two types of model parameters to quantify sources of uncertainty in VDMs.

54 ENVIRONMENTAL SCIENCES↗

Remote Sensing Program

Field spectroradiometric and airborne multispectral scanner data were related to vineyard yield and other agronomic variables in an attempt to determine the optimum wavelengths for yield prediction modeling. Reflections between vine canopy reflectance and several management practices were also considered. Spectral analysis of test vines found that, although some correlations with vine yield were significant, they were inadequate for producing a yield prediction model. The findings also indicate that the vines examined through the field spectroradiometers were not truly representative. Geologic linears identified from aerial photographys, LANDSAT images, and maps were compared to gas well locations in three New York' counties. Correlations were found between the dominant trends in regional liners and gas field boundaries and trends. Other projects being conducted under the grant include determining vegetable acreage in mucklands, site selection for windmills, spectral effects of sulfur dioxide, and screening tomato seedlings for salt tolerance.

Philipson, W. R.↗

Landsat-D thematic mapper simulator

The design and testing program for the airborne Landsat-D thematic-mapper simulator (TMS) is summarized. The TMS is intended to provide data similar enough to those expected from Landsat-D to facilitate the development of data-processing software. The design process comprised mainly modifications on the existing MSS-simulator fiber optics, dichroics, and detectors to provide 7-channel coverage of the 0.45-12.3-micron range at 60-deg angle of view, corresponding to a 418-element, 13.8-km-wide ground swath. The TMS is carried on a Lear 23 aircraft operating at 750 km/h and 12-m altitude and equipped with a 15.2-cm aerial mapping camera and a ground-updated inertial navigational system. Agricultural, forestry, and geological trial applications are reviewed, and some sample results are given. The significant improvements predicted for the Landsat-D thematic mapper (relative to the Landsat MSS) are seen as confirmed, with the possible exception of the 120-m-resolution version of channel 7.

Flanagan, G. F.↗

The energetics and mass structure of regions of star formation: S201

Theoretical predictions about dust and gas in star forming regions are tested by observing a 4 arcmin region surrounding the radio continuum source in 5201. The object was mapped in two far infrared wavelengths and found to show significant extended emission. Under the assumption that the molecular gas is heated solely via thermal coupling with the dust, the volume density was mapped in 5201. The ratios of infrared optical depth to CO column density were calculated for a number of positions in the source. Near the center of the cloud the values are found to be in good agreement with other determinations for regions with lower column density. In addition, the observations suggest significant molecular destruction in the outer parts of the object. Current models of gas heating were used to calculate a strong limit for the radius of the far infrared emitting grains, equal to or less than 0.15 micron. Grains of about this size are required by the observation of high temperature (T equal to or greater than 20 K) gas in many sources.

Thronson, H. A., Jr.↗

Models of cometary emission in the 18-cm OH transitions - The predicted behavior of Comet Halley

The return of Halley's comet to the inner solar system in 1985-1986 presents an excellent opportunity to study the behavior of a bright comet, since observations may be planned ahead of time to yield the maximum scientific return. Observations of the OH radical in the 18-cm wavelength Alpha-doublet transitions can be expected to yield significant results to cometary science in a number of areas from the measurement of the production rate of OH parent molecules (water) to the elucidation of the kinematics in the coma. Therefore, models of the OH emission from the comae of comets are presented together with predictions of brightness and spectra of Halley's Comet during the current apparition as an aid to prospective observers. The desirability of certain observational programs, including monitoring, mapping, polarimetry, and occultation experiments, are also discussed.

Schloerb, F. P.↗

Experiments in swept-wing transition

Stability and transition experiments are conducted on a 45 degree sweep airfoil in the ASU Unsteady Wind Tunnel. Combined flow-visualization techniques and hot-wire measurements are used in conjuction with stability-code calculations to map out transition behavior for this flow geometry. Both steady and unsteady crossflow vortices are observed and at this time there is no contradiction with the theoretical predictions.

Saric, William S.↗

Simulator for heterogeneous dataflow architectures

A new simulator is developed to simulate the execution of an algorithm graph in accordance with the Algorithm to Architecture Mapping Model (ATAMM) rules. ATAMM is a Petri Net model which describes the periodic execution of large-grained, data-independent dataflow graphs and which provides predictable steady state time-optimized performance. This simulator extends the ATAMM simulation capability from a heterogenous set of resources, or functional units, to a more general heterogenous architecture. Simulation test cases show that the simulator accurately executes the ATAMM rules for both a heterogenous architecture and a homogenous architecture, which is the special case for only one processor type. The simulator forms one tool in an ATAMM Integrated Environment which contains other tools for graph entry, graph modification for performance optimization, and playback of simulations for analysis.

Malekpour, Mahyar R.↗

Correction of Single Frequency Altimeter Measurements for Ionosphere Delay

This study is a preliminary analysis of the accuracy of various ionosphere models to correct single frequency altimeter height measurements for Ionospheric path delay. In particular, research focused on adjusting empirical and parameterized ionosphere models in the parameterized real-time ionospheric specification model (PRISM) 1.2 using total electron content (TEC) data from the global positioning system (GPS). The types of GPS data used to adjust PRISM included GPS line-of-sight (LOS) TEC data mapped to the vertical, and a grid of GPS derived TEC data in a sun-fixed longitude frame. The adjusted PRISM TEC values, as well as predictions by IRI-90, a climatotogical model, were compared to TOPEX/Poseidon (T/P) TEC measurements from the dual-frequency altimeter for a number of T/P tracks. When adjusted with GPS LOS data, the PRISM empirical model predicted TEC over 24 1 h data sets for a given local time to with in a global error of 8.60 TECU rms during a midnight centered ionosphere and 9.74 TECU rms during a noon centered ionosphere. Using GPS derived sun-fixed TEC data, the PRISM parameterized model predicted TEC within an error of 8.47 TECU rms centered at midnight and 12.83 TECU rms centered at noon. From these best results, it is clear that the proposed requirement of 3-4 TECU global rms for TOPEX/Poseidon Follow-On will be very difficult to meet, even with a substantial increase in the number of GPS ground stations, with any realizable combination of the aforementioned models or data assimilation schemes.

Schreiner, William S.↗