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Results for “Prediction algorithms”

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 37 records · Page 2
All sourcesNASA NTRSDOE OSTI
DOE OSTI2025

Knowledge graph-aided Bayesian active learning for top- K genetic interaction discovery

In silico methods for predicting the effects of multi-gene perturbations hold great promise for advancing functional genomics, computational drug discovery, and disease modeling. However, the development of these predictive algorithms for mammalian systems has been hampered by limited datasets and high experimental costs. In this study, we present a Bayesian active learning framework designed to discover pairwise host gene knockdowns that effectively inhibit viral proliferation in an in vitro HIV-1 infection model. Our method leverages a biological knowledge graph as side information and employs a computationally efficient batch diversification approach. We evaluated this framework using a dataset of viral load measurements obtained from multi-day dual-gene depletion experiments, encompassing all possible pairwise knockdowns of over 350 host genes associated with HIV infection. We demonstrate that our framework rapidly identifies the most effective gene knockdown pairs for reducing viral load. Furthermore, we show that incorporating side information enhances performance during the early stages of active learning (low data regime), while our batch diversification strategy significantly boosts performance in later stages (high data regime). This framework is general and can be adapted to explore gene interactions in other contexts, such as synthetic lethality prediction and mapping epistatic effects across quantitative trait loci.

Computational biology and bioinformatics↗
DOE OSTI2025

Open-Source and FAIR Research Software for Proteomics

Scientific discovery relies on innovative software as much as experimental methods, especially in proteomics, where computational tools are essential for mass spectrometer setup, data analysis, and interpretation. Since the introduction of SEQUEST, proteomics software has grown into a complex ecosystem of algorithms, predictive models, and workflows, but the field faces challenges, including the increasing complexity of mass spectrometry data, limited reproducibility due to proprietary software, and difficulties integrating with other omics disciplines. Closed-source, platform-specific tools exacerbate these issues by restricting innovation, creating inefficiencies, and imposing hidden costs on the community. Open-source software (OSS), aligned with the FAIR Principles (Findable, Accessible, Interoperable, Reusable), offers a solution by promoting transparency, reproducibility, and community-driven development, which fosters collaboration and continuous improvement. In this manuscript, we explore the role of OSS in computational proteomics, its alignment with FAIR principles, and its potential to address challenges related to licensing, distribution, and standardization. Drawing on lessons from other omics fields, we present a vision for a future where OSS and FAIR principles underpin a transparent, accessible, and innovative proteomics community.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2024

Topological grain boundary segregation transitions

Engineering the structure of grain boundaries (GBs) by solute segregation is a promising strategy to tailor the properties of polycrystalline materials. Solute segregation triggering phase transitions at GBs has been suggested theoretically to offer different pathways to design interfaces, but an understanding of their intrinsic atomistic nature is missing. Here, we combined atomic resolution electron microscopy and atomistic simulations to discover that iron segregation to GBs in titanium stabilizes icosahedral units (“cages”) that form robust building blocks of distinct GB phases. Owing to their five-fold symmetry, the iron cages cluster and assemble into hierarchical GB phases characterized by a different number and arrangement of the constituent icosahedral units. Our advanced GB structure prediction algorithms and atomistic simulations validate the stability of these observed phases and the high excess of iron at the GB that is accommodated by the phase transitions.

36 MATERIALS SCIENCE↗
NASA NTRS1980

Quantitative interpretation of Great Lakes remote sensing data

The paper discusses the quantitative interpretation of Great Lakes remote sensing water quality data. Remote sensing using color information must take into account (1) the existence of many different organic and inorganic species throughout the Great Lakes, (2) the occurrence of a mixture of species in most locations, and (3) spatial variations in types and concentration of species. The radiative transfer model provides a potential method for an orderly analysis of remote sensing data and a physical basis for developing quantitative algorithms. Predictions and field measurements of volume reflectances are presented which show the advantage of using a radiative transfer model. Spectral absorptance and backscattering coefficients for two inorganic sediments are reported.

Shook, D. F.↗
NASA NTRS1978

An interaction solution algorithm for viscous aerodynamic performance prediction

A weak-interaction solution algorithm is established for aerodynamic flow field prediction about an isolated airfoil. It requires numerical solution of differential equations governing potential flow, viscous and turbulent boundary layer flow, and the turbulent wake flow downstream of a trailing edge. The algorithm accounts for computed viscous displacement effects on the potential flow. These in turn alter the viscous flow through imposed pressure gradients. Closure for turbulence is accomplished using a second order model. Numerical evaluations assess factors affecting solution accuracy, convergence and stability for the combined potential, boundary layer, and parabolic Navier-Stokes equation systems as solved using a finite element algorithm.

Baker, A. J.↗
NASA NTRS1978

Updating of ADAPT predictions of sunspot activity

An eigenvector analysis procedure was used to analyze and develop algorithms for predicting sunspot numbers. The predictors in these algorithms consist of sunspot numbers from the preceding two solar cycles and magnetic index data from the preceding cycle. Predictions are presented for cycles 21 and 22. The sunspot activity for cycle 21 is predicted to remain below 100 until early 1980 when it will rapidly reach a peak of approximately 120. The two sigma accuracy on these estimates is approximately 20 sunspot numbers in the region of the peak and 10 sunspot numbers early and late in the cycle. Algorithms were also developed for predicting the period of future sunspot cycles using the same predictor vector.

Hunter, H. C.↗
DOE OSTI2026

Structure-aware Initialization via Numerical Continuation and Informed Priors

Scientific machine learning (SciML) often operates in ill-conditioned, weakly identifiable regimes due to limited data or indirect observations. In such settings, optimization and inference are highly sensitive to the starting point, making initialization--often under-reported--a consequential degree of freedom. Random initialization is not a neutral default as it induces an implicit prior over candidate solutions and can systematically bias the result, producing large run-to-run variability. Here, we formalize this view by treating initialization as a hidden confounder in SciML and develop a unifying theory for structure-aware initialization via numerical continuation, constructing warm starts from related problem instances. Across representative tasks, including physics-informed neural networks, maximum likelihood estimation, and variational inference, warm starts have been shown to consistently reduce optimization effort and improve reliability.

Data integrity↗
DOE OSTI2025

Optimization of an aerostructural machining process using physics-guided Bayesian stability modelling

Existing algorithms for predicting milling chatter have not been widely adopted in industry since they require specialized instruments to measure the stability inputs. This study describes how the machining process for a meter-scale aluminum aerostructure was optimized using a physics-guided Bayesian stability model. The study was performed in collaboration with an industrial partner on production machines to evaluate the practicality of the proposed method under real-world conditions. For each cutting tool, the Bayesian approach automatically selected a small number of cutting tests, which were monitored using a microphone to observe the chatter frequency. The algorithm learned the system dynamics, cutting forces, and stability map from these test results. A novel algorithm for predicting tool bending stress was incorporated into the test selection algorithm to avoid tool breakage. On average, each set of optimized cutting parameters required less than six tests to identify and were 97% more productive than baseline parameters from the cutting tool manufacturer. The machining program was then further optimized using commercial feedrate scheduling software to remove cutting force spikes and reduce air cutting time. Five components were machined using the optimized process. These results demonstrate the potential for physics-guided Bayesian models to improve productivity in industrial settings.

Cornelius, Aaron [UT Knoxville]↗
NASA NTRS1977

Range validation using Kalman filter techniques

Range pseudo-residuals may be improved to the level required for data validation by a measurement updating process which utilizes Bierman's adaptation of the Kalman filter measurement updating algorithms together with process noise compensation to account for model errors. This algorithm involves combining the currently available range predictions and measurements to produce an updated range residual measurement whose accuracy is constrained by the range data quality and by the estimated error in the prediction. The algorithm is compact and fast, and is thus suitable for on-line applications in network control or at the station.

Madrid, G. A.↗
NASA NTRS1972

Application of Avco data analysis and prediction techniques (ADAPT) to prediction of sunspot activity

The results are presented of the application of Avco Data Analysis and Prediction Techniques (ADAPT) to derivation of new algorithms for the prediction of future sunspot activity. The ADAPT derived algorithms show a factor of 2 to 3 reduction in the expected 2-sigma errors in the estimates of the 81-day running average of the Zurich sunspot numbers. The report presents: (1) the best estimates for sunspot cycles 20 and 21, (2) a comparison of the ADAPT performance with conventional techniques, and (3) specific approaches to further reduction in the errors of estimated sunspot activity and to recovery of earlier sunspot historical data. The ADAPT programs are used both to derive regression algorithm for prediction of the entire 11-year sunspot cycle from the preceding two cycles and to derive extrapolation algorithms for extrapolating a given sunspot cycle based on any available portion of the cycle.

Hunter, H. E.↗
DOE OSTI2025

Functional Relevance of CASP16 Nucleic Acid Predictions as Evaluated by Structure Providers

ABSTRACT Accurate biomolecular structure prediction enables the prediction of mutational effects, the speculation of function based on predicted structural homology, the analysis of ligand binding modes, experimental model building, and many other applications. Such algorithms to predict essential functional and structural features remain out of reach for biomolecular complexes containing nucleic acids. Here, we report a quantitative and qualitative evaluation of nucleic acid structures for the CASP16 blind prediction challenge by 12 of the experimental groups who provided nucleic acid targets. Blind predictions accurately model secondary structure and some aspects of tertiary structure, including reasonable global folds for some complex RNAs; however, predictions often lack accuracy in the regions of highest functional importance. All models have inaccuracies in non‐canonical regions where, for example, the nucleic‐acid backbone bends, deviating from an A‐form helix geometry, or a base forms a non‐standard hydrogen bond (not a Watson‐Crick base pair). These bends and non‐canonical interactions are integral to forming functionally important regions such as RNA enzymatic active sites. Additionally, the modeling of conserved and functional interfaces between nucleic acids and ligands, proteins, or other nucleic acids remains poor. For some targets, the experimental structures may not represent the only structure the biomolecular complex occupies in solution or in its functional life cycle, posing a future challenge for the community.

Biochemistry & Molecular Biology↗
DOE OSTI2024

From Data to Insights: A Covariate Analysis of the IARPA BRIAR Dataset for Multimodal Biometric Recognition Algorithms at Altitude and Range

This paper examines covariate effects on fused whole body biometrics performance in the IARPA BRIAR dataset, specifically focusing on UAV platforms, elevated positions, and distances up to 1000 meters. The dataset includes outdoor videos compared with indoor images and controlled gait recordings. Normalized raw fusion scores relate directly to predicted false accept rates (FAR), offering an intuitive means for interpreting model results. A linear model is developed to predict biometric algorithm scores, analyzing their performance to identify the most influential covariates on accuracy at altitude and range. Weather factors like temperature, wind speed, solar loading, and turbulence are also investigated in this analysis. The study found that resolution and camera distance best predicted accuracy and findings can guide future research and development efforts in long-range/elevated/UAV biometrics and support the creation of more reliable and robust systems for national security and other critical domains.

Bolme, David↗
NASA NTRS1981

A numerical simulation of hypersonic viscous flow over arbitrary geometries at angle of attack

An implicit conservative, noniterative, finite-difference algorithm that predicts the supersonic, laminar or turbulent viscous flow about arbitrary geometries at large angles of attack is presented. The three-dimensional parabolized form of the thin-layer Navier-Stokes equations are written in generalized coordinates. These equations are solved using the delta form of the Beam-Warming implicit algorithm. Flow field simulations have been obtained for a blunt biconic with windward and leeward cuts and an X-24C lifting body for both laminar and turbulent flow at various Mach numbers and angles of attack. When compared with experiment or with previous theories, these computational predictions show good agreement.

Chaussee, D. S.↗
DOE OSTI2025

Feature engineering descriptors, transforms, and machine learning for grain boundaries and variable-sized atom clusters

Abstract Obtaining microscopic structure-property relationships for grain boundaries is challenging due to their complex atomic structures. Recent efforts use machine learning to derive these relationships, but the way the atomic grain boundary structure is represented can have a significant impact on the predictions. Key steps for property prediction common to grain boundaries and other variable-sized atom clustered structures include: (1) describing the atomic structure as a feature matrix, (2) transforming the variable-sized feature matrix to a fixed length common to all structures, and (3) applying a machine learning algorithm to predict properties from the transformed matrices. We examine how these steps and different combinations of engineered features impact the accuracy of grain boundary energy predictions using a database of over 7000 grain boundaries. Additionally, we assess how different engineered features support interpretability, offering insights into the physics of the structure-property relationships.

36 MATERIALS SCIENCE↗
DOE OSTI2026

Enabling integrated AI control on DIII-D: a control system design with state-of-the-art experiments

We present the design and application of a general algorithm for Prediction And Control using MAchiNe learning (PACMAN) in DIII-D. Machine learning (ML)-based predictors and controllers have shown great promise in achieving regimes in which traditional controllers fail, such as tearing mode (TM) free scenarios, ELM-free scenarios and stable advanced tokamak conditions. The architecture presented here was deployed on DIII-D to facilitate the end-to-end implementation of advanced control experiments, from diagnostic processing to final actuation commands. This paper describes the detailed design of the algorithm and explains the motivation behind each design point. We also describe several successful ML control experiments in DIII-D using this algorithm, including a reinforcement learning controller targeting advanced non-inductive plasmas, a wide-pedestal quiescent H-mode ELM predictor, an Alfvén Eigenmode controller, a Model Predictive Control plasma profile controller and a state-machine TM predictor-controller. There is also discussion on guiding principles for real-time ML controller design and implementation.

machine learning↗
NASA NTRS1978

A high order accurate finite element algorithm for high Reynolds number flow prediction

A Galerkin-weighted residuals formulation is employed to establish an implicit finite element solution algorithm for generally nonlinear initial-boundary value problems. Solution accuracy, and convergence rate with discretization refinement, are quantized in several error norms, by a systematic study of numerical solutions to several nonlinear parabolic and a hyperbolic partial differential equation characteristic of the equations governing fluid flows. Solutions are generated using selective linear, quadratic and cubic basis functions. Richardson extrapolation is employed to generate a higher-order accurate solution to facilitate isolation of truncation error in all norms. Extension of the mathematical theory underlying accuracy and convergence concepts for linear elliptic equations is predicted for equations characteristic of laminar and turbulent fluid flows at nonmodest Reynolds number. The nondiagonal initial-value matrix structure introduced by the finite element theory is determined intrinsic to improved solution accuracy and convergence. A factored Jacobian iteration algorithm is derived and evaluated to yield a consequential reduction in both computer storage and execution CPU requirements while retaining solution accuracy.

Baker, A. J.↗