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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 19 records
All sourcesNASA NTRSDOE OSTI
DOE OSTI2021

Conflation of Geospatial POI Data and Ground-level Imagery via Link Prediction on Joint Semantic Graph

With the proliferation of smartphone cameras and social networks, we have rich, multi-modal data about points of interest (POIs) - like cultural landmarks, institutions, businesses, etc. - within a given areas of interest (AOI) (e.g., a county, city or a neighborhood) available to us. Data conflation across multiple modalities of data sources is one of the key challenges in maintaining a geographical information system (GIS) which accumulate data about POIs. Given POI data from nine different sources, and ground-level geo-tagged and scene-captioned images from two different image hosting platforms, in this work we explore the application of graph neural networks (GNNs) to perform data conflation, while leveraging a natural graph structure evident in geospatial data. The preliminary results demonstrate the capacity of a GNN operation to learn distributions of entity (POIs and images) features, coupled with topological structure of entity's local neighborhood in a semantic nearest neighbor graph, in order to predict links between a pair of entities.

Gurav, Rutuja↗
DOE OSTI2016

Trust from the past: Bayesian Personalized Ranking based Link Prediction in Knowledge Graphs

Estimating the confidence for a link is a critical task for Knowledge Graph construction. Link prediction, or predicting the likelihood of a link in a knowledge graph based on prior state is a key research direction within this area. We propose a Latent Feature Embedding based link recommendation model for prediction task and utilize Bayesian Personalized Ranking based optimization technique for learning models for each predicate. Experimental results on large-scale knowledge bases such as YAGO2 show that our approach achieves substantially higher performance than several state-of-art approaches. Furthermore, we also study the performance of the link prediction algorithm in terms of topological properties of the Knowledge Graph and present a linear regression model to reason about its expected level of accuracy.

knowledge graphs↗
DOE OSTI2022

Graph link prediction in computer networks using Poisson matrix factorisation

Graph link prediction is an important task in cybersecurity: relationships between entities within a computer network, such as users interacting with computers or system libraries and the corresponding processes that use them, can provide key insights into adversary behaviour. Poisson matrix factorisation (PMF) is a popular model for link prediction in large networks, particularly useful for its scalability. In this article PMF is extended to include scenarios that are commonly encountered in cybersecurity applications. Specifically, an extension is proposed to explicitly handle binary adjacency matrices and include known categorical covariates associated with the graph nodes. A seasonal PMF model is also presented to handle seasonal networks. To allow the methods to scale to large graphs, variational methods are discussed for performing fast inference. The results show an improved performance over the standard PMF model and other statistical network models.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2024

Topological Preservation in Temporal Link Prediction

Poster presentation for the Student Intern Symposium introducing zig-zag persistence (ZZP) and a minor result showing that a temporal link prediction model was able to create a representation which preserved the dynamic topology of the trained data.

Campos, Marco Vinicio↗
DOE OSTI2022

Ab initio predictions link the neutron skin of 208 Pb to nuclear forces

Heavy atomic nuclei have an excess of neutrons over protons, which leads to the formation of a neutron skin whose thickness is sensitive to details of the nuclear force. This links atomic nuclei to properties of neutron stars, thereby relating objects that differ in size by orders of magnitude. The nucleus 208 Pb is of particular interest because it exhibits a simple structure and is experimentally accessible. However, computing such a heavy nucleus has been out of reach for ab initio theory. By combining advances in quantum many-body methods, statistical tools and emulator technology, we make quantitative predictions for the properties of 208 Pb starting from nuclear forces that are consistent with symmetries of low-energy quantum chromodynamics. We explore 10 9 different nuclear force parameterizations via history matching, confront them with data in select light nuclei and arrive at an importance-weighted ensemble of interactions. We accurately reproduce bulk properties of 208 Pb and determine the neutron skin thickness, which is smaller and more precise than a recent extraction from parity-violating electron scattering but in agreement with other experimental probes. This work demonstrates how realistic two- and three-nucleon forces act in a heavy nucleus and allows us to make quantitative predictions across the nuclear landscape.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2025

Predictive links between microbial communities and biological oxygen utilization in the Arctic Ocean

Microbial metabolism influences rates of net community production (NCP), exerting a direct biological control on marine oxygen and carbon fluxes. In the Arctic, it is increasingly important to understand and quantify this process, as ecological and oceanographic conditions shift due to changing climate. Here, we describe potential ecological links between pelagic microbial diversity and an NCP precursor, biological oxygen utilization, using machine learning and paired observations of community structure and metabolic activity from a seasonally and spatially variable transect of the Arctic Ocean (2019–2020 MOSAiC Expedition). Community structure was determined using 16S (prokaryotic) and 18S (eukaryotic) rRNA gene amplicon sequencing, and metabolic activity was derived from ΔO 2 /Ar. Using self-organizing maps, we identified clear successional patterns in observed microbial community structure that were seasonally driven in the upper ocean and vertically stratified with depth. Metabolic activity was also stratified, with a primarily net heterotrophic water column (median −1.5% biological oxygen saturation), excepting periodic oxygen supersaturation (maximum: 13.6%) within the mixed layer. Using DNA sequences as predictor variables, we then constructed a random forest regression model that reliably reconstructed biological oxygen concentrations (root mean squared error = 4.14 μmol kg −1 ). Top predictors from this model were from heterotrophic (bacteria) or potentially mixotrophic (dinoflagellate) taxa. These analyses highlight biologically driven diagnostic tools that can be used to expand biogeochemical datasets and improve the microbial perspectives and metabolisms represented in ecological models of net productivity and carbon flux in a changing Arctic Ocean.

Chamberlain, Emelia J. [Univ. of San Diego, San Di↗
DOE OSTI2019

Learning from Dynamic User Interaction Graphs to Forecast Diverse Social Behavior

Most of the existing graph analytics for understanding social be- havior focuses on learning from static rather than dynamic graphs using hand-crafted network features or recently emerged graph embeddings learned independently from a downstream predictive task, and solving predictive (e.g., link prediction) rather than fore- casting tasks directly. To address these limitations, we propose (1) a novel task – forecasting user interactions over dynamic social graphs, and (2) a novel deep learning, multi-task, node-aware at- tention model that focuses on forecasting social interactions, going beyond recently emerged approaches for learning dynamic graph embeddings. Our model relies on graph convolutions and recurrent layers to forecast future social behavior and interaction patterns in dynamic social graphs. We evaluate our model on the ability to forecast the number of retweets and mentions of a specific news source on Twitter (focusing on deceptive and credible news sources) with R2 of 0.79 for retweets and 0.81 for mentions. An additional evaluation includes model forecasts of user-repository interactions on GitHub and comments to a specific video on YouTube with a mean absolute error close to 2% and R2 exceeding 0.69. Our results demonstrate that learning from connectivity information over time in combination with node embeddings yields better forecasting results than when we incorporate the state-of-the-art graph em- beddings e.g., Node2Vec and DeepWalk into our model. Finally, we perform in-depth analyses to examine factors that influence model performance across tasks and different graph types e.g., the influence of training and forecasting windows as well as graph topological properties.

Shrestha, Prasha↗
DOE OSTI2025

Knowledge Oriented Graph Unified Transformer (KOGUT) v0.1

KOGUT — Knowledge Oriented Graph Unified Transformer KOGUT implements the Relational Graph Transformer (RelGT) architecture for knowledge graph link prediction in biological domains, with a primary focus on microbial growth media prediction. While the original RelGT (arXiv:2505.10960) targets relational tables, time series, and multi-table databases, KOGUT adapts this architecture for heterogeneous biological knowledge graphs, providing first-in-class AI predictive models for microbial cultivation. Key Adaptations Beyond Original RelGT: - Knowledge Graph Focus: Applied to biological KGs with semantic node types (taxa, chemicals, media, phenotypes, environments) versus generic relational database tables, trained on the KG-Microbe knowledge graph (1.3M entities, 2.9M edges, 24 relation types). - Multimodal Node Encoding: Integrates node labels, categories, descriptions, and synonyms from KG metadata through learned embedding layers—adapting relational column features to graph node attributes with textual semantics. - Extended K-Hop Subgraph Strategy: Optimized neighborhood sampling (3-hop default, configurable up to 200 nodes) tuned for sparse biological networks, building on the original local-global attention framework with biological relation preservation. - Biolink Predicate Preservation: Type-specific transformations for 24 biological edge semantics (occurs_in, consumes, produces, has_phenotype, subclass_of) beyond standard relational foreign keys, enabling multi-relation link prediction. - Inductive Learning Support: Enables zero-shot predictions for novel taxa through feature-based embeddings (temperature, oxygen requirements, gram stain, cell shape), extending the original transductive relational benchmark scope to uncultured microorganisms. CheapSOTA Performance Optimizations (This Distribution): - VQ-EMA Centroid Attention: Vector quantization with exponential moving average for improved global context modeling (+5-10% MRR improvement). - HDF5 Precomputed Data Loading: One-time preprocessing of k-hop subgraphs to eliminate redundant graph traversals (2-5× training speedup). - Distributed Data Parallel Training: Multi-GPU support for scaling to larger knowledge graphs (tested on 4× NVIDIA A100 GPUs at NERSC Perlmutter). - Mixed Precision Training: Automatic mixed precision (AMP) for memory efficiency and faster training. Advantages Over Standard Knowledge Graph Embedding Models: Combines RelGT's proven multi-element tokenization (features, type, hop, structure) with graph-native biological representations, enabling interpretable link prediction across heterogeneous entities that standard embedding models (TransE, RotatE, ComplEx) and table-based transformers cannot directly model. Achieves near-perfect performance on microbial growth media prediction (MRR: 0.9966, Precision@1: 0.9932, Hit@10: 1.0000) while maintaining explainability through attention-based reasoning over biological pathways. Training Data: - KG-Microbe merged knowledge graph: 1,379,337 nodes, 2,960,472 edges - 24 biological relation types including taxonomic hierarchies, metabolic interactions, phenotype associations, and environmental relationships - Primary prediction task: Growth media suitability for microbial taxa (biolink:occurs_in, 50K edges) - Multi-relation capability: Predicts links for any of the 24 relation types, including chemical consumption/production, phenotype associations, and taxonomic classification Citation: Original RelGT Architecture: Dwivedi et al., "Relational Graph Transformer", arXiv:2505.10960, 2025 KOGUT Implementation: Knowledge Oriented Graph Unified Transformer for Microbial Growth Media Prediction Developed at Lawrence Berkeley National Laboratory (LBNL) Trained on NERSC Perlmutter supercomputer

Joachimiak, Marcin [Lawrence Berkeley National Lab↗