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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 91 records · Page 5
All sourcesNASA NTRSDOE OSTI
DOE OSTI2025

Physicochemical and Molecular Insights into the Boundary Layer and Free Troposphere Aerosol Interactions over the Southern Great Plains

Ambient aerosols’ vertical profiles are critical for evaluating the role of aerosols in atmospheric chemistry and radiative transfer, but limited data on these profiles hinders our ability to fully assess their impact on the Earth's radiative balance. Here, in this study, we investigated the size-, time-, and altitude resolved composition of individual particles and bulk molecular composition of particle samples collected by an uncrewed aerial system–ArcticShark over the Southern Great Plains. Single particle microanalysis shows that, the free tropospheric (FT) samples are dominated (56-66%) by carbonaceous sulfate particles, while boundary layer (BL) samples are dominated (57-74%) by carbonaceous particles. Back trajectory simulations suggest that FT particles are likely influenced by long-range transport and have undergone aqueous-phase processing. Conversely, in-situ size distribution data shows evidence of particle growth in the upper BL and just below the FT. This observation may indicate vertical transport of particles from an elevated aerosol layer in the FT, possibly linked to a new particle formation event. This observation is further supported by high resolution molecular composition data, which reveals particle volatility increasing with increasing size, which aligns with the growth event. This study aids in fundamental understanding of the compositional and molecular specificity of vertically resolved organic aerosols to provide insights into particle size evolution for future atmospheric models.

ArcticShark↗
DOE OSTI2024

Western Interconnection Baseline Study

The purpose of the baseline study is to evaluate the degree to which current industry planning processes meet the national 2035 decarbonization goals for the Western Interconnection. This analysis serves as a comparative baseline for the scenario analysis conducted in the NTP Study using a Western Interconnection dataset that is readily available to industry. This baseline analysis differs from the production cost modeling analysis and power flow analysis in the main NTP Study report (forthcoming). In particular, the analysis presented in this report reflects a business-as-usual future with an optimistic build out of specific planned transmission projects and foreseeable generation. In contrast, the NTP Study models a future generation and transmission expansion based on optimization from a capacity expansion model. The analysis presented herein also reflects a 2030 timeframe, whereas the main NTP Study production cost modeling analysis and power flow analysis reflect a 2035 time frame. This baseline analysis utilizes industry’s most reliable data to account for future transmission projects across various stages of development, with a particular focus on those in the permitting stage. Additionally, it incorporates projections for changes in generation capacity (both additions and retirements). This baseline analysis outlines a probable trajectory, given current process and practice, for the future of the bulk power system with a horizon extending to 2030.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗
DOE OSTI2024

Evolution of the regulatory subunits for the heteromeric acetyl-CoA carboxylase

The committed step for de novo fatty acid (FA) synthesis is the ATP-dependent carboxylation of acetyl-coenzyme A catalysed by acetyl-CoA carboxylase (ACCase). In most plants, ACCase is a multi-subunit complex orthologous to prokaryotes. However, unlike prokaryotes, the plant and algal orthologues are comprised both catalytic and additional dedicated regulatory subunits. Novel regulatory subunits, biotin lipoyl attachment domain-containing proteins (BADC) and carboxyltransferase interactors (CTI) (both three-gene families inArabidopsis) represent new effectors specific to plants and certain algal species. The evolutionary history of these genes in autotrophic eukaryotes remains elusive, making it an ongoing area of research. Analyses of potential protein–protein and co-occurrence interactions, informed by gene network patterns using the STRING database, inArabidopsis thalianaandChlamydomonas reinhardtiiunveil intricate gene associations with ACCase, suggesting a complex interplay between FA synthesis and other cellular processes. Among both species, a higher number of co-expressed genes was identified inArabidopsis, indicating a wider potential regulatory network of ACCase in plants. This review investigates the extent to which these genes arose in autotrophic eukaryotes and provides insights into their evolutionary trajectory. This article is part of the theme issue ‘The evolution of plant metabolism’.

Life Sciences & Biomedicine - Other Topics↗
DOE OSTI2024

GCAM-USA: IM3 Phase 2 Official Simulations

Overview GCAM-USA simulates 21st century energy-water-land interactions in global regions with sub-national detail in the United States (US). The IM3 project is focused on US multisector dynamics and has created eight GCAM-USA simulations by combining two Shared Socioeconomic Pathways (SSP3 and SSP5) with four high-resolution climate projections specific to the United States (see https://tgw-data.msdlive.org/). These climate projections include "hotter" and "cooler" variants for two Representative Concentration Pathways (RCP4.5 and RCP8.5). The resulting eight GCAM-USA simulations are named: rcp45cooler_ssp3 rcp45cooler_ssp5 rcp45hotter_ssp3 rcp45hotter_ssp5 rcp85cooler_ssp3 rcp85cooler_ssp5 rcp85hotter_ssp3 rcp85hotter_ssp5 Detailed Assumptions The SSPs describe alternative socioeconomic futures and their implications for both the US and global environmental challenges. As implemented in GCAM-USA, the primary difference between SSP3 and SSP5 in the US is their population growth projections, with SSP3 foreseeing lower growth and SSP5 projecting higher growth. The four climate projections explore moderate (RCP4.5) and high (RCP8.5) greenhouse gas emission (GHG) trajectories, each with a hotter and cooler climate variation based on the range of global climate model simulations in CMIP6s. These four climate projections are used in precursor models to develop climate impacts on building heating and cooling degree-hours, water availability, and agricultural yields that are provided as inputs to GCAM-USA. GCAM-USA reproduces the RCP4.5 and RCP8.5 GHG emissions trajectories consistent with each climate projection, using dynamic carbon prices to achieve RCP4.5. When the four climate projections are combined with the two SSP projections, the resulting eight scenarios allow GCAM-USA to explore how a wide, yet plausible, range of climate and socioeconomic impacts affects the interconnected energy, water, and land systems across the contiguous United States. Technical Details IM3 uses a version of GCAM-USA v5.3 that has an enhanced electricity sector and an updated data system needed to represent regional to local scale dynamics.

IM3↗
DOE OSTI2024

A multiscale model of immune surveillance in micrometastases gives insights on cancer patient digital twins

Abstract Metastasis is the leading cause of death in patients with cancer, driving considerable scientific and clinical interest in immunosurveillance of micrometastases. We investigated this process by creating a multiscale mathematical model to study the interactions between the immune system and the progression of micrometastases in general epithelial tissue. We analyzed the parameter space of the model using high-throughput computing resources to generate over 100,000 virtual patient trajectories. We demonstrated that the model could recapitulate a wide variety of virtual patient trajectories, including uncontrolled growth, partial response, and complete immune response to tumor growth. We classified the virtual patients and identified key patient parameters with the greatest effect on the simulated immunosurveillance. We highlight the lessons derived from this analysis and their impact on the nascent field of cancer patient digital twins (CPDTs). While CPDTs could enable clinicians to systematically dissect the complexity of cancer in each individual patient and inform treatment choices, our work shows that key challenges remain before we can reach this vision. In particular, we show that there remain considerable uncertainties in immune responses, unreliable patient stratification, and unpredictable personalized treatment. Nonetheless, we also show that in spite of these challenges, patient-specific models suggest strategies to increase control of clinically undetectable micrometastases even without complete parameter certainty.

Mathematical & Computational Biology↗
DOE OSTI2024

Nanoscopic Imaging of Self-Propelled Ultrasmall Catalytic Nanomotors

Ultrasmall nanomotors (<100 nm) are highly desirable nanomachines for their size-specific advantages over their larger counterparts in applications spanning nanomedicine, directed assembly, active sensing, and environmental remediation. While there are extensive studies on motors larger than 100 nm, the design and understanding of ultrasmall nanomotors have been scant due to the lack of high-resolution imaging of their propelled motions with orientation and shape details resolved. Here, we report the imaging of the propelled motions of catalytically powered ultrasmall nanomotors─hundreds of them─at the nanometer resolution using liquid-phase transmission electron microscopy. These nanomotors are Pt nanoparticles of asymmetric shapes (“tadpoles” and “boomerangs”), which are colloidally synthesized and observed to be fueled by the catalyzed decomposition of NaBH4 in solution. Statistical analysis of the orientation and position trajectories of fueled and unfueled motors, coupled with finite element simulation, reveals that the shape asymmetry alone is sufficient to induce local chemical concentration gradient and self-diffusiophoresis to act against random Brownian motion. Our work elucidates the colloidal design and fundamental forces involved in the motions of ultrasmall nanomotors, which hold promise as active nanomachines to perform tasks in confined environments such as drug delivery and chemical sensing.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2025

Forecasting for ESCAPE: A Multi-Institution Hybrid Forecasting and Nowcasting Operation for Sea-Breeze Convection Supporting a Ground-Based and Airborne Field Campaign

The Experiment of Sea-Breeze Convection, Aerosols, Precipitation and Environment (ESCAPE) field project deployed two aircraft and ground-based assets in the vicinity of Houston, Texas, between 27 May and 2 July 2022, examining how meteorological conditions, dynamics, and aerosols control the initiation, early growth stage, and evolution of coastal convective clouds. To ensure that airborne- and ground-based assets were deployed appropriately, a forecasting and nowcasting team was formed. Daily forecasts guided real-time decision-making by assessing synoptic weather conditions, environmental aerosol, and a variety of atmospheric modeling data to assign a probability for meeting specific ESCAPE campaign objectives. During the research flights, a small team of forecasters provided “nowcasting” support by analyzing radar, satellite, and new model data in real time. The nowcasting team proved invaluable to the campaign operation, as sometimes changing environmental conditions affected, for example, the timing of convective initiation. In addition to the success of the forecasting and nowcasting teams, the ESCAPE campaign offered a unique “testbed” opportunity where in-person and virtual support both contributed to campaign objectives. The forecasting and nowcasting teams were each composed of new and experienced forecasters alike, where new forecasters were given invaluable experience that would otherwise be difficult to attain. Both teams received training on forecast models, map analysis, Hybrid Single-Particle Lagrangian Integrated Trajectory model (HYSPLIT), and thermodynamic sounding analysis before the beginning of the campaign. In this article, the ESCAPE forecasting and nowcasting teams reflect on these experiences, providing potentially useful advice for future field campaigns requiring forecasting and nowcasting support in a hybrid virtual/in-person framework.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Understanding Event Trajectories Across Massive Temporal Datasets with Word Embeddings and Visualization

In collaboration with researchers from Virginia Tech, Savannah River National Laboratory has continued development of a natural language processing pipeline to identify and extract events of interest from massive open data sources in the domain of worldwide state-sponsored civil nuclear energy. The foundation of the pipeline is built on compass aligned temporal word embedding models, whereby contextual shifts are automatically identified by comparing keyword embedding vectors across successive time windows. Within the approach, a contextual shift indicates the occurrence of a potential event of interest. However, in such a broad topical domain that captures events at a global scale, across various life cycle stages, and across numerous different technology types, a user that is monitoring events may have broad interests in capturing many different event types with varying degrees of signal. As such, the quantity of information that may be returned from an automated event extraction pipeline can be substantial, requiring manual effort to sift through the information to identify any relevant bits of information. Therefore, a more streamlined workflow that aids in directing a user toward specific information at different points in time is necessary. The workflow presented here has been developed with this concept in mind, built on top of the initial prototype event extraction pipeline, whereby a user can analyze temporal text-based data sources at multiple different contextual levels to isolate key points in time and key subdomains captured within a data corpus. Using multiple corpuses that consist of approximately 7 million Tweets and 7 million news articles, the team has extended compass aligned temporal word embedding models to establish an interconnected and hierarchical structure that relates known key words of interest to documents, local topics (i.e., within a time window), and global topics across the corpuses. All of this information is packaged into a visual analytics system that is linked to the information extraction pipeline and enables a user to identify contextual information that describes the evolution of a high dimensional embedding space across time to isolate changes of interest and explore associated events. This report demonstrates the use of these analytics and a means to fuse information across multiple datasets.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2025

Nine Canyon Long-Duration Energy Storage: A Feasibility Study

The Nine Canyon Long Duration Energy Storage (LDES) Feasibility Study explores the technical and economic viability of deploying advanced energy storage technologies at Energy Northwest's (EN) Nine Canyon (9C) Wind Project site in Benton County, Washington. Supported by the Washington State Department of Commerce and the U.S. Department of Energy’s Office of Electricity under its LDES Voucher Program, the study represents a collaborative effort between EN, Pacific Northwest National Laboratory (PNNL), and ARES North America. At the core of this effort is the development of a generalized techno-economic modeling framework and evaluation tool designed to assess the value proposition of LDES projects across a variety of contexts. The modeling tool is technology-agnostic and accommodates user-defined parameters such as rated power, energy duration, round-trip efficiency, capital and operational costs, and dispatch constraints. It also integrates economic inputs, including market prices, energy revenue structures, and financing parameters to evaluate performance through key metrics. The tool provides utilities with a transparent, adaptable platform to support decision-making, investment prioritization, and portfolio planning for various storage technologies. To guide scenario design and interpretation, the study first surveyed the LDES technology landscape, including lithium-ion batteries, flow batteries, non-hydro gravity storage, and thermo-mechanical systems, comparing cost trajectories, technical performance, safety and hazards, materials sourcing and recyclability, and spatial/siting considerations. This literature-grounded review highlights technology trade-offs and reinforces the need to align technology choice with site characteristics, use cases, and project objectives. A companion chapter examines ownership structures (EN ownership, third-party ownership, shared models) and offtake options (energy marketing, capacity/energy PPAs, time-of-use PPAs, block-delivery PPAs, and tolling), where PPAs (power purchase agreements) represent contractual arrangements for buying and selling electricity. The chapter also highlights implications for risk allocation, capital access, operational control, and revenue certainty. The study also evaluates supervisory control and data acquisition (SCADA) and transmission interconnection pathways, options include upgrading the existing SCADA or deploying a dedicated LDES controller, with attention to protection schemes, data telemetry, cybersecurity, and regulatory coordination with BPA. In addition, an ARES-specific geotechnical and hydrology assessment presented in the appendix screens multiple corridors for slope stability, bearing capacity, cut-and-fill magnitude, and stormwater behavior.

25 ENERGY STORAGE↗
DOE OSTI2025

Assessing the levelized cost of energy in South Korea

This study evaluates the levelized cost of energy (LCOE) for various energy technologies in the Republic of Korea (Korea) from 2023 to 2050, highlighting cost trajectories and potential crossovers among competing technologies. The analysis projects that, based on our set of assumptions, utility-scale photovoltaic systems achieve lower LCOEs than nuclear by 2030, while fixed offshore wind is expected to become cost-competitive with coal-fired generation around the same time. Floating offshore wind is projected to reach cost parity with coal in the late 2030s. Co-firing with natural gas and green hydrogen is identified as the highest-cost generation option due to high natural gas and green fuel costs and declining capacity utilization. This study further examines the potential for hybrid systems that integrate renewable energy with energy storage to serve as flexible, cost-effective, zero-emission alternatives to green hydrogen-based generation. Spatial LCOE assessments indicate that near-shore offshore wind sites may achieve lower costs despite modest capacity factors, contingent on site-specific factors such as grid integration and social acceptance. The findings indicate that renewable energy technologies are expected to experience continued cost declines, with solar photovoltaic becoming the most competitive energy source in Korea by 2030–2035. Incorporating social costs accelerates this shift from conventional alternatives.

Green hydrogen↗
DOE OSTI2026

Implications of climate change impacts for emission and land use scenario development

Scenarios of future emissions and land use produced by integrated assessment models have traditionally been developed without accounting for how climate change impacts could affect the emissions and land use trajectories themselves. This omission risks skewing our assessments of the plausible range of future emission pathways and associated Earth system changes. Beyond the salience for emission scenario development, a better integrated representation of human and Earth system changes and feedbacks would enable better anticipation of the implications of alternative socio-economic development pathways. We use the Global Change Analysis Model to investigate whether endogenizing several impacts when generating its baseline emission scenario is warranted. We do so by comparing the emissions and land use change that result from the baseline scenario with and without impacts, where impacts are implemented as exogenous changes to water availability, crop and labor productivity, and energy demand and supply. Our results indicate that the effect on global emissions leads to less than 0.1 °C increase in warming by 2100 and therefore do not support endogenizing impacts. This conclusion is conditional on our modeling framework and the specific impact channels represented but is consistent with other studies that have addressed the magnitude of feedbacks by implementing a two-way coupling. However, we do find regional impacts indicating that local economies and well-being measures may be affected significantly.

climate impacts↗
DOE OSTI2026

Plastome evolution in annual Brachypodium species reveals widespread heteroplasmy and chloroplast capture, lineage-specific codon usage bias, and low positive selection

Comparative genomics and plastome phylogenomics have advanced significantly in recent years, highlighting the diversity, possible admixture, and non-neutral evolution of the predominantly considered non-recombinant chloroplast genomes in angiosperms. The grass genus Brachypodium serves as a powerful model for studying evolutionary processes in monocots. We analyzed 287 plastomes across the native circum-Mediterranean range of the three annual Brachypodium species ( B. distachyon, B. stacei, B. hybridum ), focusing on their structural variation, selection patterns and phylogenomic relationships. Our analyses confirmed the differentiation of the S and D plastomes, inherited respectively from the diploid progenitor species B. stacei and B. distachyon . We identified novel structural rearrangements and indels, and unique repeat motifs, along with widespread heteroplasmy, particularly in ancestral B. hybridum -D plastotypes. SNP diversity varied among plastotypes, reflecting population dynamics and evolutionary histories, with B. hybridum -D plastotypes showing the highest normalized diversity and B. hybridum -S the lowest. Positive selection was detected in 29 plastid genes by Tajima’s neutrality test, and in nine genes by site and branch-site evolutionary models, including matK, ndhF, rbcL, and rpoC2. Phylogenomic analyses revealed well-supported clades corresponding to the S and D plastome lineages, with frequent chloroplast capture events and long-distance dispersals shaping their evolutionary trajectories.

allopolyploidy↗
DOE OSTI2024

Changes in above- versus belowground biomass distribution in permafrost regions in response to climate warming

Permafrost regions contain approximately half of the carbon stored in land ecosystems and have warmed at least twice as much as any other biome. This warming has influenced vegetation activity, leading to changes in plant composition, physiology, and biomass storage in aboveground and belowground components, ultimately impacting ecosystem carbon balance. Yet, little is known about the causes and magnitude of long-term changes in the above- to belowground biomass ratio of plants (η). Here, in this study, we analyzed η values using 3,013 plots and 26,337 species-specific measurements across eight sites on the Tibetan Plateau from 1995 to 2021. Our analysis revealed distinct temporal trends in η for three vegetation types: a 17% increase in alpine wetlands, and a decrease of 26% and 48% in alpine meadows and alpine steppes, respectively. These trends were primarily driven by temperature-induced growth preferences rather than shifts in plant species composition. Our findings indicate that in wetter ecosystems, climate warming promotes aboveground plant growth, while in drier ecosystems, such as alpine meadows and alpine steppes, plants allocate more biomass belowground. Furthermore, we observed a threefold strengthening of the warming effect on η over the past 27 y. Soil moisture was found to modulate the sensitivity of η to soil temperature in alpine meadows and alpine steppes, but not in alpine wetlands. Our results contribute to a better understanding of the processes driving the response of biomass distribution to climate warming, which is crucial for predicting the future carbon trajectory of permafrost ecosystems and climate feedback.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Expansion of high-latitude deciduous forests driven by interactions between climate warming and fire: Modeling Archive

This Modeling Archive is in support of an NGEE Arctic publication. More information in the related references. The dataset is a model (ecosys) output used in a study that examined the potential future shifts in high-latitude vegetation types (PFTs) driven by changes in 21st century climate and fire. The study highlights the importance of mechanistically representing differences in plant functional traits on current and possible 21st century trajectories of Alaskan PFTs. This dataset package includes 13 files in pdf, csv, and nc formats.The Next-Generation Ecosystem Experiments: Arctic (NGEE Arctic), was a research effort to reduce uncertainty in Earth System Models by developing a predictive understanding of carbon-rich Arctic ecosystems and feedbacks to climate. NGEE Arctic was supported by the Department of Energy's Office of Biological and Environmental Research.The NGEE Arctic project had two field research sites: 1) located within the Arctic polygonal tundra coastal region on the Barrow Environmental Observatory (BEO) and the North Slope near Utqiagvik (Barrow), Alaska and 2) multiple areas on the discontinuous permafrost region of the Seward Peninsula north of Nome, Alaska.Through observations, experiments, and synthesis with existing datasets, NGEE Arctic provided an enhanced knowledge base for multi-scale modeling and contributed to improved process representation at global pan-Arctic scales within the Department of Energy's Earth system Model (the Energy Exascale Earth System Model, or E3SM), and specifically within the E3SM Land Model component (ELM).

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Psychosocial experiences are associated with human brain mitochondrial biology

Psychosocial experiences affect brain health and aging trajectories, but the molecular pathways underlying these associations remain unclear. Normal brain function relies on energy transformation by mitochondria oxidative phosphorylation (OxPhos). Two main lines of evidence position mitochondria both as targets and drivers of psychosocial experiences. On the one hand, chronic stress exposure and mood states may alter multiple aspects of mitochondrial biology; on the other hand, functional variations in mitochondrial OxPhos capacity may alter social behavior, stress reactivity, and mood. But are psychosocial exposures and subjective experiences linked to mitochondrial biology in the human brain? By combining longitudinal antemortem assessments of psychosocial factors with postmortem brain (dorsolateral prefrontal cortex) proteomics in older adults, we find that higher well-being is linked to greater abundance of the mitochondrial OxPhos machinery, whereas higher negative mood is linked to lower OxPhos protein content. Combined, positive and negative psychosocial factors explained 18 to 25% of the variance in the abundance of OxPhos complex I, the primary biochemical entry point that energizes brain mitochondria. Moreover, interrogating mitochondrial psychobiological associations in specific neuronal and nonneuronal brain cells with single-nucleus RNA sequencing (RNA-seq) revealed strong cell-type-specific associations for positive psychosocial experiences and mitochondria in glia but opposite associations in neurons. As a result, these “mind-mitochondria” associations were masked in bulk RNA-seq, highlighting the likely underestimation of true psychobiological effect sizes in bulk brain tissues. Thus, self-reported psychosocial experiences are linked to human brain mitochondrial phenotypes.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2026

Synthesizing land use and demographic change in Southeast Asia’s smaller urbanized areas from 2000–2015

The majority of the human population now reside in urban areas today. The United Nations estimates that nearly half of all urban dwellers currently live in cities smaller than 500 000 persons and the majority of future urban growth will take place in Asia and Africa, likely in these smaller urban areas, not mega cities. Thus, understanding the factors that influence urban demographic trajectories in small urban areas is critical to address sustainable and equitable policy initiatives related to food security, changing climate hazard exposure, and economic opportunities. Here we focus on Southeast Asia—a region historically characterized by lower urban population proportions, yet with a rapidly shifting dynamic demographic—to examine correlates of demographic change among smaller cities. We combine two open-source satellite-informed datasets: GHS urban center database (2015) and age-sex gridded data from WorldPop to calculate socio-demographic characteristics to model drivers of change in annualized urban population growth from 2000–2015 for 505 urbanized places. We find a general pattern of decreasing dependency ratios as city-size increases for most urban areas in Southeast Asia. Higher rates of growth and more variation is observed for smaller cities—those with fewer than 300 000 persons, the lowest population limit for UN data on urbanization. When examining covariates of urban population growth, we find significant statistical associations of population change in smaller urbanized areas with climatic, economic, and land cover/land use variables, but with country-specific variations. Characterizing a continuum of urban population development in the context of changing environmental, economic and climate conditions has been an important sustainable development and equity issue for decades, but newer analysis of city-level drivers allows for systematic inquiry thus moving beyond total population counts for policy-relevant insight.

Southeast Asia synthesis↗
DOE OSTI2026

Habitat Affinity of Riverine Dissolved Organic Matter Linked to Molecular Traits

Fluxes of organic matter across Earth habitats shape ecosystem function and carbon storage. Yet, it is challenging to predict howthe molecules are preferentially accumulated in specific habitats, that is, the habitat affinities, due to their diverse character-istics. Here, we develop an indicator of compositional-level habitat affinity for dissolved organic matter (DOM) by quantifyingthe aggregated affinities of individual molecules that are over- or under-represented relative to a reference habitat. Applyingthis indicator to 93 paired riverine water-sediment sites, we find that 65.1% of molecules show non-significant habitat affinitiesfor water or sediment and are thermodynamically favorable and susceptible to microbial degradation. Consistently, the habitataffinities of DOM assemblages decrease with lower molecular weights and recalcitrance for waters, and with higher thermody-namic favorability for sediments. These affinities are both reduced by elevated temperatures and anthropogenic pressures, suchas nitrogen loading and land-use change. Our projection of habitat affinities of global riverine DOM shows that regions withintense anthropogenic disturbances or warm climates, such as East Asia, Western Europe, and the Amazon, tend to exhibit loweraffinities. These findings suggest enhanced molecular homogenization between water and sediment habitats is associated withenvironmental changes and underscore the importance of habitat affinities for predicting the potential trajectories of organiccarbon across ecosystems

Cui, Yifan↗
DOE OSTI2025

DOME: Directional medical embedding vectors from Electronic Health Records

Motivation: The increasing availability of Electronic Health Record (EHR) systems has created enormous potential for translational research. Recent developments in representation learning techniques have led to effective large-scale representations of EHR concepts along with knowledge graphs that empower downstream EHR studies. However, most existing methods require training with patient-level data, limiting their abilities to expand the training with multi-institutional EHR data. On the other hand, scalable approaches that only require summary-level data do not incorporate temporal dependencies between concepts. Methods: We introduce a DirectiOnal Medical Embedding (DOME) algorithm to encode temporally directional relationships between medical concepts, using summary-level EHR data. Specifically, DOME first aggregates patient-level EHR data into an asymmetric co-occurrence matrix. Then it computes two Positive Pointwise Mutual Information (PPMI) matrices to correspondingly encode the pairwise prior and posterior dependencies between medical concepts. Following that, a joint matrix factorization is performed on the two PPMI matrices, which results in three vectors for each concept: a semantic embedding and two directional context embeddings. They collectively provide a comprehensive depiction of the temporal relationship between EHR concepts. Results: We highlight the advantages and translational potential of DOME through three sets of validation studies. First, DOME consistently improves existing direction-agnostic embedding vectors for disease risk prediction in several diseases, for example achieving a relative gain of 5.5% in the area under the receiver operating characteristic (AUROC) for lung cancer. Second, DOME excels in directional drug-disease relationship inference by successfully differentiating between drug side effects and indications, correspondingly achieving relative AUROC gain over the state-of-the-art methods by 10.8% and 6.6%. Finally, DOME effectively constructs directional knowledge graphs, which distinguish disease risk factors from comorbidities, thereby revealing disease progression trajectories. The source codes are provided at https://github.com/celehs/Directional-EHRembedding.

60 APPLIED LIFE SCIENCES↗