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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 OSTI2026

Compilation and utilization of a sorghum transcriptome compendium for gene regulatory network analysis and crop trait engineering

Sorghum bicolor (Sorghum) is a drought and heat tolerant C4 grass crop used to produce grain, forage, biofuels, and other bioproducts. Genetic improvement of sorghum hybrid crops is aided by a large and diverse germplasm, sorghum's diploid inbreeding genetics, and a relatively small genome that has facilitated genomic research. Over the past 20 years, the sorghum research community characterized the cytogenetic and recombinant landscapes of sorghum's 10 chromosomes, sequenced and annotated the sorghum genome, and used that information to identify genes/alleles that modulate flowering time, plant height, seed shattering, and other important traits. More recently, >1000 RNA-seq transcriptome profiles were collected from 15 sorghum genotypes to help understand the genetic basis of variation in growth and development of sorghum stems, tillers, roots, and leaves, and the regulation of biosynthetic pathways that produce epicuticular wax, dhurrin, and RFOs, compounds that contribute to sorghum's resilience. Transcriptome studies were designed to identify differentially expressed genes that are co-expressed during development or in response to a treatment to enable construction of gene regulatory networks. Co-expression and network analysis identified transcription factors and their cognate binding sites in target gene promoters and signaling pathways that modulate gene regulatory networks providing gene editing targets for further trait optimization. RNA-seq data from >20 experiments targeting sorghum organs, tissues, cell types, developmental stages, and responses to environmental conditions (i.e., diel, day-length, shading, water-deficit, temperature) has been compiled in a sorghum transcriptome compendium. The goal of this resource paper is to describe compendium content, accessibility, and a compendium data analysis pipeline and to illustrate the types of information that can be derived from the compendium with a focus on the elucidation of gene regulatory networks useful for guiding the improvement of sorghum traits through gene editing.

RNA-seq↗
DOE OSTI2020

The ENDF/B-VIII.0 Compendium Volume I: Neutron Cross Section Plots

Version 8 of the Evaluated Nuclear Data File (ENDF/B-VIII.0) contains a wealth of nuclear data representing the most recent collection of evaluated neutron cross section measurements, isotopic radioactive decay, and much more. This Compendium has been prepared as a easily-navigable reference of the contents of the ENDF/B-VIII.0 library, while making no statement regarding the accuracy of those contents. The Compendium is split into four volumes.

07 ISOTOPE AND RADIATION SOURCES↗
DOE OSTI2020

The ENDF/B-VIII.0 Compendium Volume IV: Radioactive Decay Rank-Order Analyses

Version 8 of the Evaluated Nuclear Data File (ENDF/B-VIII.0) contains a wealth of nuclear data representing the most recent collection of evaluated neutron cross section measurements, isotopic radioactive decay, and much more. This Compendium has been prepared as a easily-navigable reference of the contents of the ENDF/B-VIII.0 library, while making no statement regarding the accuracy of those contents. The Compendium is split into four volumes. In Volume IV, radioactive decay properties are presented in tabular form, sorted by isotope, energy, element-then- energy, and probability of emission.

07 ISOTOPE AND RADIATION SOURCES↗
DOE OSTI2020

The ENDF/B-VIII.0 Compendium Volume II: Neutron Cross Section Rank-Order Analyses

Version 8 of the Evaluated Nuclear Data File (ENDF/B-VIII.0) contains a wealth of nuclear data representing the most recent collection of evaluated neutron cross section measurements, isotopic radioactive decay, and much more. This Compendium has been prepared as a easily-navigable reference of the contents of the ENDF/B-VIII.0 library, while making no statement regarding the accuracy of those contents. The Compendium is split into four volumes. Volume II presents a series of tables of reaction cross section values for thermal (0.025 eV), fission (1 MeV), and fusion (14 MeV) energies, each sorted by cross section value, isotope, and element-then-isotope to facilitate quick searches.

07 ISOTOPE AND RADIATION SOURCES↗
DOE OSTI2021

Compendium of Material Composition Data for Radiation Transport Modeling

In 2011, Pacific Northwest National Laboratory (PNNL) produced a document known as the Materials Compendium, or Compendium of Material Composition Data for Radiation Transport Modeling, PNNL 15870, Rev. 1, that contains material information useable for modeling purposes for properties of 372 materials. This information is used in several modeling programs used by the radiological/nuclear community, though it is primarily tailored for the Monte-Carlo-N-Particle code produced by Los Alamos National Laboratory. This new document Revision 2 includes a complete review and update of all materials data and references, addressing discrepancies and changes in materials data or references that have occurred since the first revision, an additional 40 materials have been added, primarily newer detector materials developed since the last revision, and isotopic specificity.

07 ISOTOPE AND RADIATION SOURCES↗
DOE OSTI2025

Increasing the Scale of the Mass Spectrometry Query Language Compendium with Explainable AI

A significant bottleneck in metabolomics data interpretation is the effective use of domain knowledge to assign structural information based on fragmentation patterns. The mass spectrometry query language (MassQL) aims to make this process accessible and applicable across multiple analysis platforms. While advanced computational methods are capable of predicting compound structures from fragmentation data, AI/ML approaches often rely on complex, opaque criteria that are difficult to interpret or modify. As a result, their predictive patterns cannot be readily translated into human-readable rules, such as those used in MassQL. Here, in this study, we introduce ChemEcho, a machine learning embedding method that converts tandem mass spectrometry data into sparse feature vectors containing peak and neutral mass subformulae to enhance explainable AI/ML-based methods. An advantage of this approach is that decision trees trained using these feature vectors can be directly translated to MassQL. Using a battery of decision trees trained using ChemEcho embeddings to predict molecular attributes, we generated over 1500 MassQL queries for 765 molecular features and evaluated their precision and recall. From these queries, the 50 highest-performing queries were integrated into the MassQL compendium. This set of generated MassQL queries included environmentally and biologically relevant classes such as PFAS and molecules containing phosphate or sulfate substructures. To illustrate the impact these queries would have on a typical metabolomics experiment, these MassQL queries were applied to a public metabolomics data set─resulting in a marked increase in the structural information derived from tandem mass spectra. Access and reuse of these queries is expected to enhance structural annotation in untargeted experiments, leading to more specific claims and advancing many applications in metabolomics.

Harwood, Thomas V. [USDOE Joint Genome Institute (↗
DOE OSTI2023

A compendium of bacterial and archaeal single-cell amplified genomes from oxygen deficient marine waters

Oxygen-deficient marine waters referred to as oxygen minimum zones (OMZs) or anoxic marine zones (AMZs) are common oceanographic features. They host both cosmopolitan and endemic microorganisms adapted to low oxygen conditions. Microbial metabolic interactions within OMZs and AMZs drive coupled biogeochemical cycles resulting in nitrogen loss and climate active trace gas production and consumption. Global warming is causing oxygen-deficient waters to expand and intensify. Therefore, studies focused on microbial communities inhabiting oxygen-deficient regions are necessary to both monitor and model the impacts of climate change on marine ecosystem functions and services. Here we present a compendium of 5,129 single-cell amplified genomes (SAGs) from marine environments encompassing representative OMZ and AMZ geochemical profiles. Of these, 3,570 SAGs have been sequenced to different levels of completion, providing a strain-resolved perspective on the genomic content and potential metabolic interactions within OMZ and AMZ microbiomes. Hierarchical clustering confirmed that samples from similar oxygen concentrations and geographic regions also had analogous taxonomic compositions, providing a coherent framework for comparative community analysis.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

A geopositioned and evidence-graded pan-species compendium of Mayaro virus occurrence

Mayaro Virus (MAYV) is an emerging health threat in the Americas that can cause febrile illness as well as debilitating arthralgia or arthritis. To better understand the geographic distribution of MAYV risk, we developed a georeferenced database of MAYV occurrence based on peer-reviewed literature and unpublished reports. Here we present this compendium, which includes both point and polygon locations linked to occurrence data documented from its discovery in 1954 until 2022. We describe all methods used to develop the database including data collection, georeferencing, management and quality-control. We also describe a customized grading system used to assess the quality of each study included in our review. The result is a comprehensive, evidence-graded database of confirmed MAYV occurrence in humans, non-human animals, and arthropods to-date, containing 262 geo-positioned occurrences in total. This database - which can be updated over time - may be useful for local spill-over risk assessment, epidemiological modelling to understand key transmission dynamics and drivers of MAYV spread, as well as identification of major surveillance gaps.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2024

A compendium of multi-omics data illuminating host responses to lethal human virus infections

Human infections caused by viral pathogens trigger a complex gamut of host responses that limit disease, resolve infection, generate immunity, and contribute to severe disease or death. Here, we present experimental methods and multi-omics data capture approaches representing the global host response to infection generated from 45 individual experiments involving human viruses from the Orthomyxoviridae, Filoviridae, Flaviviridae, and Coronaviridae families. Analogous experimental designs were implemented across human or mouse host model systems, longitudinal samples were collected over defined time courses, and global multi-omics data (transcriptomics, proteomics, metabolomics, and lipidomics) were acquired by microarray, RNA sequencing, or mass spectrometry analyses. For comparison, we have included transcriptomics datasets from cells treated with type I and type II human interferon. Raw multi-omics data and metadata were deposited in public repositories, and we provide a central location linking the raw data with experimental metadata and ready-to-use, quality-controlled, statistically processed multi-omics datasets not previously available in any public repository. This compendium of infection-induced host response data for reuse will be useful for those endeavouring to understand viral disease pathophysiology and network biology.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2022

A compendium and meta-analysis of flatband potentials for TiO2, ZnO, and SnO2 semiconductors in aqueous media

Semiconductor/electrolyte interfaces are of great interest to numerous scientific fields including renewable energy, (photo)electrochemistry, and energy storage. The semiconductor flatband potential is a key parameter in locating the conduction band minimum or valence band maximum of the semiconductor material in electrolyte. Despite its importance for quantifying the energetic location of the semiconductor bands, literature reports for the same material demonstrate significant variability in the flatband potential. In this compendium and meta-analysis, reported flatband potentials of the common semiconductor materials TiO2, SnO2, and ZnO in aqueous electrolyte were compiled and assessed to quantify the spread in literature flatband potentials as well as determine the factors that lead to the significant spread. For TiO2, SnO2, and ZnO, literature flatband potentials referenced to the reversible hydrogen electrode span a range of nearly 2 V each. Flatband potential tabulations were separated by variables such as the solution pH, the crystalline polymorph, the crystal facet, the morphology, and the dimensions or combinations of these variables to assess the factors that contribute to the observed spread. Important and surprising findings from these categorizations are summarized: (1) Even for the narrowest categorizations, the spread in flatband potential is still large. (2) Flatband potentials of TiO2 and SnO2 follow the expected Nernstian dependence with solution pH. ZnO materials deviate from this Nernstian dependence. (3) In the aggregate, there is no statistically significant difference in the reported flatband potentials of anatase and rutile TiO2. Single crystal tabulations were the only distributions to have statistically significant differences in the flatband potential between anatase and rutile TiO2. (4) Anatase TiO2 materials with a nanotube morphology appear to have a +400 mV difference in mean flatband potential compared to all other morphologies, but we argue that this is likely due to widespread misuse of the Mott–Schottky analysis. Other interesting findings are revealed within the spread of literature flatband potentials, and possible explanations are provided to generate discussion. We also briefly review and discuss common techniques that were used to determine the flatband potential and the pitfalls/criticisms of these techniques. Last, we discuss some ways in which future research on the determination of the flatband potential can be performed to improve the reliability of reported values and the quality of the work. In total, the results from this meta-analysis suggest multiple factors can affect the measured flatband potential and that an abundance of caution should be applied when attempting to quantify the flatband potential of complex or nanostructured systems.

Patel, Milan Y. (ORCID:0000000291948141)↗
DOE OSTI2025

Climate Adaptation Approaches for Water and Electric Utilities: A compendium of existing strategies in a changing climate

Report analyzes plans developed by water and electric utilities to address the impacts of changes in the climate within their service territories. The analysis identifies the main types of changes that utilities address, such as sea level rise, extreme heat, and compound events such as freezing rain/show and extreme wind events. It then identifies adaptation approaches utilities have proposed or adopted to address the changes that are anticipated in their service territories. The report also identifies the mechanisms utilities (and in some cases the governments which the utilities are part of) use to ensure that energy or environmental equity is increased as a result of the resilience program. In summary, the report provides a compendium of adaptation strategies that can be used by others as they review their own need to increase climate resilience.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗
DOE OSTI2021

A compendium of sphere path integrals

We study the manifestly covariant and local 1-loop path integrals on S d+1 for general massive, shift-symmetric and (partially) massless totally symmetric tensor fields of arbitrary spin s ≥ 0 in any dimensions d ≥ 2. After reviewing the cases of massless fields with spin s = 1, 2, we provide a detailed derivation for path integrals of massless fields of arbitrary integer spins s ≥ 1. Following the standard procedure of Wick-rotating the negative conformal modes, we find a higher spin analog of Polchinski’s phase for any integer spin s ≥ 2. The derivations for low-spin (s = 0, 1, 2) massive, shift-symmetric and partially massless fields are also carried out explicitly. Finally, we provide general prescriptions for general massive and shift-symmetric fields of arbitrary integer spins and partially massless fields of arbitrary integer spins and depths.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2021

Metagenomic compendium of 189,680 DNA viruses from the human gut microbiome

Bacteriophages have important roles in the ecology of the human gut microbiome but are under-represented in reference databases. To address this problem, we assembled the Metagenomic Gut Virus catalogue that comprises 189,680 viral genomes from 11,810 publicly available human stool metagenomes. Over 75% of genomes represent double-stranded DNA phages that infect members of the Bacteroidia and Clostridia classes. Based on sequence clustering we identified 54,118 candidate viral species, 92% of which were not found in existing databases. The Metagenomic Gut Virus catalogue improves detection of viruses in stool metagenomes and accounts for nearly 40% of CRISPR spacers found in human gut Bacteria and Archaea. We also produced a catalogue of 459,375 viral protein clusters to explore the functional potential of the gut virome. This revealed tens of thousands of diversity-generating retroelements, which use error-prone reverse transcription to mutate target genes and may be involved in the molecular arms race between phages and their bacterial hosts.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2025

A compendium of human gene functions derived from evolutionary modelling

A comprehensive, computable representation of the functional repertoire of all macromolecules encoded within the human genome is a foundational resource for biology and biomedical research. The Gene Ontology Consortium has been working towards this goal by generating a structured body of information about gene functions, which now includes experimental findings reported in more than 175,000 publications for human genes and genes in experimentally tractable model organisms 1,2 . Here, we describe the results of a large, international effort to integrate all of these findings to create a representation of human gene functions that is as complete and accurate as possible. Specifically, we apply an expert-curated, explicit evolutionary modelling approach to all human protein-coding genes. This approach integrates available experimental information across families of related genes into models that reconstruct the gain and loss of functional characteristics over evolutionary time. The models and the resulting set of 68,667 integrated gene functions cover approximately 82% of human protein-coding genes. The functional repertoire reveals a marked preponderance of molecular regulatory functions, and the models provide insights into the evolutionary origins of human gene functions. We show that our set of descriptions of functions can improve the widely used genomic technique of Gene Ontology enrichment analysis. The experimental evidence for each functional characteristic is recorded, thereby enabling the scientific community to help review and improve the resource, which we have made publicly available.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Strategic Petroleum Reserve Enhanced Monitoring Compendium - FY 2021

The Strategic Petroleum (SPR) is the world’s largest supply of crude oil. The reserve consists of fours sites in Louisiana and Texas. Each site stores crude in deep, underground salt caverns. It is the mission of the SPR’s Enhanced Monitoring Program to examine all available data to inform our understanding of each site. This report discusses the data, processes and results for each of the four sites.

02 PETROLEUM↗
DOE OSTI2022

Rules and Tools Crosswalk: A Compendium of Computational Tools to Support Geologic Carbon Storage Environmentally Protective UIC Class VI Permitting

This report identifies computational tools useful for addressing aspects of the dedicated carbon storage (Class VI) well permit application under the U. S. Environmental Protection Agency’s (EPA) Underground Injection Control (UIC) Program. The survey was conducted by researchers of the National Energy Technology Laboratory’s (NETL) Research and Innovation Center in collaboration with representatives of the U.S. EPA, Lawrence Berkeley National Laboratory (LBNL), Lawrence Livermore National Laboratory (LLNL), Los Alamos National Laboratory (LANL), Pacific Northwest National Laboratory (PNNL), and the four Regional Initiatives to Accelerate Carbon Capture, Utilization, and Storage: Carbon Utilization and Storage Partnership of the Western United States (CUSP), Plains CO 2 Reduction Partnership Initiative to Accelerate Carbon Capture, Utilization, and Storage Deployment (PCOR Partnership), Midwest Regional Carbon Initiative (MRCI), and the Southeast Regional Carbon Utilization and Storage Partnership (SECARB-USA). A total of 59 tools were identified through the elicitation for this report. It is intended to serve as a reference that can be used by geologic carbon storage stakeholders to identify computational tools that may be used to develop Class VI permit applications.

54 ENVIRONMENTAL SCIENCES↗