Engineering Papers⌕ Search

SEARCH · Engineering Papers

Results for “New link prediction”

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.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 145 records · Page 8
All sourcesNASA NTRSDOE OSTI
DOE OSTI2021

In silico trials predict that combination strategies for enhancing vesicular stomatitis oncolytic virus are determined by tumor aggressivity

Background Immunotherapies, driven by immune-mediated antitumorigenicity, offer the potential for significant improvements to the treatment of multiple cancer types. Identifying therapeutic strategies that bolster antitumor immunity while limiting immune suppression is critical to selecting treatment combinations and schedules that offer durable therapeutic benefits. Combination oncolytic virus (OV) therapy, wherein complementary OVs are administered in succession, offer such promise, yet their translation from preclinical studies to clinical implementation is a major challenge. Overcoming this obstacle requires answering fundamental questions about how to effectively design and tailor schedules to provide the most benefit to patients. Methods We developed a computational biology model of combined oncolytic vaccinia (an enhancer virus) and vesicular stomatitis virus (VSV) calibrated to and validated against multiple data sources. We then optimized protocols in a cohort of heterogeneous virtual individuals by leveraging this model and our previously established in silico clinical trial platform. Results Enhancer multiplicity was shown to have little to no impact on the average response to therapy. However, the duration of the VSV injection lag was found to be determinant for survival outcomes. Importantly, through treatment individualization, we found that optimal combination schedules are closely linked to tumor aggressivity. We predicted that patients with aggressively growing tumors required a single enhancer followed by a VSV injection 1 day later, whereas a small subset of patients with the slowest growing tumors needed multiple enhancers followed by a longer VSV delay of 15 days, suggesting that intrinsic tumor growth rates could inform the segregation of patients into clinical trials and ultimately determine patient survival. These results were validated in entirely new cohorts of virtual individuals with aggressive or non-aggressive subtypes. Conclusions Based on our results, improved therapeutic schedules for combinations with enhancer OVs can be studied and implemented. Our results further underline the impact of interdisciplinary approaches to preclinical planning and the importance of computational approaches to drug discovery and development.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2022

BMC Caller: a webtool to identify and analyze bacterial microcompartment types in sequence data

Bacterial microcompartments (BMCs) are protein-based organelles found across the bacterial tree of life. They consist of a shell, made of proteins that oligomerize into hexagonally and pentagonally shaped building blocks, that surrounds enzymes constituting a segment of a metabolic pathway. The proteins of the shell are unique to BMCs. They also provide selective permeability; this selectivity is dictated by the requirements of their cargo enzymes. We have recently surveyed the wealth of different BMC types and their occurrence in all available genome sequence data by analyzing and categorizing their components found in chromosomal loci using HMM (Hidden Markov Model) protein profiles. To make this a “do-it yourself” analysis for the public we have devised a webserver, BMC Caller (https://bmc-caller.prl.msu.edu), that compares user input sequences to our HMM profiles, creates a BMC locus visualization, and defines the functional type of BMC, if known. Shell proteins in the input sequence data are also classified according to our function-agnostic naming system and there are links to similar proteins in our database as well as an external link to a structure prediction website to easily generate structural models of the shell proteins, which facilitates understanding permeability properties of the shell. Additionally, the BMC Caller website contains a wealth of information on previously analyzed BMC loci with links to detailed data for each BMC protein and phylogenetic information on the BMC shell proteins. Our tools greatly facilitate BMC type identification to provide the user information about the associated organism’s metabolism and enable discovery of new BMC types by providing a reference database of all currently known examples.

59 BASIC BIOLOGICAL SCIENCES↗
NASA NTRS2008

IceVal DatAssistant: An Interactive, Automated Icing Data Management System

As with any scientific endeavor, the foundation of icing research at the NASA Glenn Research Center (GRC) is the data acquired during experimental testing. In the case of the GRC Icing Branch, an important part of this data consists of ice tracings taken following tests carried out in the GRC Icing Research Tunnel (IRT), as well as the associated operational and environmental conditions documented during these tests. Over the years, the large number of experimental runs completed has served to emphasize the need for a consistent strategy for managing this data. To address the situation, the Icing Branch has recently elected to implement the IceVal DatAssistant automated data management system. With the release of this system, all publicly available IRT-generated experimental ice shapes with complete and verifiable conditions have now been compiled into one electronically-searchable database. Simulation software results for the equivalent conditions, generated using the latest version of the LEWICE ice shape prediction code, are likewise included and are linked to the corresponding experimental runs. In addition to this comprehensive database, the IceVal system also includes a graphically-oriented database access utility, which provides reliable and easy access to all data contained in the database. In this paper, the issues surrounding historical icing data management practices are discussed, as well as the anticipated benefits to be achieved as a result of migrating to the new system. A detailed description of the software system features and database content is also provided; and, finally, known issues and plans for future work are presented.

Levinson, Laurie H.↗
DOE OSTI2021

Evaluating Climate Models with the CLIVAR 2020 ENSO Metrics Package

El Niño–Southern Oscillation (ENSO) is the dominant mode of interannual climate variability on the planet, with far-reaching global impacts. It is therefore key to evaluate ENSO simulations in state-of-the-art numerical models used to study past, present, and future climate. Recently, the Pacific Region Panel of the International Climate and Ocean: Variability, Predictability and Change (CLIVAR) Project, as a part of the World Climate Research Programme (WCRP), led a community-wide effort to evaluate the simulation of ENSO variability, teleconnections, and processes in climate models. The new CLIVAR 2020 ENSO metrics package enables model diagnosis, comparison, and evaluation to 1) highlight aspects that need improvement; 2) monitor progress across model generations; 3) help in selecting models that are well suited for particular analyses; 4) reveal links between various model biases, illuminating the impacts of those biases on ENSO and its sensitivity to climate change; and to 5) advance ENSO literacy. By interfacing with existing model evaluation tools, the ENSO metrics package enables rapid analysis of multipetabyte databases of simulations, such as those generated by the Coupled Model Intercomparison Project phases 5 (CMIP5) and 6 (CMIP6). The CMIP6 models are found to significantly outperform those from CMIP5 for 8 out of 24 ENSO-relevant metrics, with most CMIP6 models showing improved tropical Pacific seasonality and ENSO teleconnections. Only one ENSO metric is significantly degraded in CMIP6, namely, the coupling between the ocean surface and subsurface temperature anomalies, while the majority of metrics remain unchanged.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

Enhanced Feedstock Characterization and Modeling to Facilitate Optimal Preprocessing and Deconstruction of Corn Stover (Final Report)

This project addresses the challenge of processing corn stover by fractionating this biomass feedstock to both streamline processing and generate new potential co-products. Additionally, the project developed new field-deployable analytical tools that can be coupled with empirical models that were used to predict feedstock properties and processing performance. The overall scope of this project was: (1) identify conditions for optimal corn stover fractionation using a two- stage physical fractionation, (2) assess how physical fractionation impacts properties, partitioning of biomass, and response to processing, (3) further adapt, develop, and validate several advanced characterization tools for assessing biomass properties that can be linked to processing behavior, and (4) develop and validate predictive models based on measurements that can be performed “in the field” or “at the biorefinery gate” to predict feedstock processing behavior (preprocessing and deconstruction). The first objective employed pre-separation processing (size reduction) which was next subjected to enhanced separations to yield fractions enriched or depleted in select compositional components or properties. For the second objective, fractions were screened for their response to post-separation processing (pretreatment and enzymatic hydrolysis). Detailed characterization profiles were developed and dynamic image analysis to assess distribution of particle size and morphology. For the final objective, we utilized these tools to develop empirical models to assess the relative abundance of tissue type in order to assess fractionation efficacy and to predict fraction performance during pretreatment and enzymatic hydrolysis.

09 BIOMASS FUELS↗
DOE OSTI2021

Code and Solution Verification Assessment of the CTF Thermal Hydraulic Subchannel Code

CTF is a thermal-hydraulics subchannel code jointly developed by Oak Ridge National Laboratory and North Carolina State University. Over the past seven years, the Consortium for Advanced Simulation of Light Water Reactors (CASL) has made a significant investment in developing CTF so it can be used to model light water reactors, including nominal operating conditions, departure from nucleate boiling analysis, and transients ranging from loss of flow to reactivity insertion accidents. In addition to implementing new modeling capabilities and developing the user input and output interface, extensive work has been performed to improve the code’s quality assurance program, resulting in a development process that conforms with NQA-1 requirements. The CASL program follows the Predictive Capability Maturity Model (PCMM) approach for assessing code quality, which emphasizes performing code verification(ensuring the code converges to the correct answer) and solution verification (ensuring the code converges for the intended application). Code and solution verification are used to identify uncertainty errors introduced by numerical approximations in the code and are important for demonstrating that the model is coded without error, which is an important aspect of the Best Estimate plus Uncertainty method. This paper presents a comprehensive overview of the code and solution verification testing that has been performed on CTF. A top-down approach is taken in which the intended CTF applications are presented, followed by the code features required for their modeling. These features are then linked to the applicable code and solution verification tests that demonstrate proper functioning. Past testing efforts are summarized, and new tests are added to help close gaps in the presented test matrix. Rather than performing “one-off” exercises, these tests are added to the automated CTF regression test suite to ensure continual code quality.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗
DOE OSTI2024

Robust increase in South Asian monsoon rainfall under warming driven by extratropical clouds and ocean

The responses of South Asian Monsoon (SAM) circulation under global warming are known to be highly uncertain, leading to the wide spread of SAM rainfall projections among models. Here, we show that the uncertain SAM circulation in Coupled Model Intercomparison Project Phase 6 models consists of two robust components that partly offset each other: a weakening component linked to a global thermodynamic constraint and a northward shift component understood through a regional 2D energetic perspective. We further attribute the robust northward shift of SAM circulation to positive cloud feedback over the Eurasia Continent and heat uptake in the Southern Ocean. A set of climate model simulations supports the finding that SAM rainfall increase is primarily due to the northward shift of circulation driven by extratropical processes. This energetic perspective opens new avenues for predicting monsoon rainfall by connecting circulation changes to radiative forcing, feedbacks, and ocean heat uptake.

54 ENVIRONMENTAL SCIENCES↗
NASA NTRS1991

General patterns of flow field growth - Aa and blocky lavas

Lava flowfields consist of one or more flows. Four ideal emplacement regimes are recognized: that for single flows and that for flowfields dominated by (1) widening, (2) thickening, or (3) lengthening, as a result of generating new flows. Most aa and blocky lavas belong to the flowfield widening or single-flow regimes. These two regimes are analyzed assuming advance is controlled by the distal core of a flow, where motion is treated as steady, uniform, and laminar. Because of low deformation rates, the distal core is also approximated to a Newtonian fluid. Widening and, possibly, lengthening are ultimately limited by crustal resistance. After a critical cooling interval, new flows are generated from the upper reaches of the flowfield. A simple relation is derived linking flowfield dimensions and underlying slope to eruption duration, independent of terms involving gravity or lava chemistry and rheology. The relation well describes field data from several volcanoes (involving lava compositions from K phonolitic tephrite to dacite). This supports the premise that the overall growth of aa and blocky flowfields is systematic and also suggests that such growth may be predictable at timescales greater than, or similar to, the emplacement times of major flows.

Kilburn, Christopher R. J.↗
DOE OSTI2026

A Search for Successful and Choked Jets in Nearby Broad-lined Type Ic Supernovae

The observational link between long gamma-ray bursts (GRBs) and broad-lined stripped-envelope core-collapse supernovae (SNe Ic-BL) is well established. Significant progress has been made in constraining what fraction of SNe Ic-BL may power high- or low-luminosity GRBs when viewed at small off-axis angles. However, the GRB–SN connection still lacks a complete understanding in the broader context of massive-star evolution and explosion physics. Models predict a continuum of outcomes for the fastest ejecta, from choked to ultrarelativistic jets, and observations from radio to X-rays are key to probing these scenarios across a range of viewing angles and velocities. Here, we present results from a coordinated radio-to-X-ray campaign targeting nearby (z ≲ 0.1) SNe Ic-BL designed to explore this diversity. With eight new radio-monitored events and updated data for one previously observed SN, we further tighten constraints on the fraction of SNe Ic-BL as relativistic as SN 1998bw (GRB 980425). We identify SN 2024rjw as a new radio-loud event likely powered by strong interaction with circumstellar material, and add evidence supporting a similar interpretation for SN 2020jqm. We also establish new limits on the properties of radio-emitting ejecta with velocities consistent with cocoons from choked jets, highlighting SN 2022xxf as a promising cocoon-dominated candidate. These results refine our understanding of the continuum linking ordinary SNe Ic-BL, engine-driven explosions, and GRBs, and contribute to building a sample that will inform future multimessenger searches for electromagnetic counterparts to high-energy neutrinos.

O’Dwyer, Tanner [Johns Hopkins Univ., Baltimore, M↗
DOE OSTI2023

An integrated statistical-thermodynamic model for fission gas release and swelling in nuclear fuels

Here, we propose a new model for burst fission gas release induced by microcracking in ceramic nuclear fuels such as uranium dioxide. The model stipulates that the densities of defects in the fuel material, such as microcracks and fission gas bubbles on grain boundaries, evolve in accordance with the second law of thermodynamics. Central to the model is the notion of an effective temperature, conjugate to the configurational entropy of the fuel material, and directly linked to the burnup. The model predicts that microcracking, driven by the internal stress state of the fuel material, reduces the bubble storage capacity of grain boundaries, and accounts for burst fission gas release during rapid temperature transients that simulate power transients, reactor startup, and loss-of-coolant accident conditions.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
NASA NTRS1997

Fade Dynamics and its Evolution: The Other Part of the ACTS Rain Prediction Model

The inception of the Advanced Communication Technology Satellite (ACTS) Project has required a similarly advanced statistical mathematical modeling formalism to describe the behavior of the 30/20 GHz links emanating to and from the earth terminals through the deleterious effects of the earth's atmosphere. The resulting ACTS Rain Attenuation Prediction Model has been thoroughly described in (Manning). In the present paper, the basic rudiments of this model will be reviewed; Section 1 covers the static or time-independent portion of the model and Section 2 covers the dynamic or time-dependent portion. The results of Section 2 are then applied to a new approximate solution of the famous problem of the time duration tau of a fade of a random process below some threshold. This is known as the fade duration. The new approximate solution was published in Russian (Denisenko) and, unfortunately, was never published into English. Hence, this work is restated following (Denisenko) in Section 3 which is immediately applied to the random rain fade process. The results for all five ACTS propagation sites as well as Tampa, FL are then given.

Manning, Robert M.↗
NASA NTRS1997

Fade Dynamics and Its Evolution: The Other Part of the Acts Rain Prediction Model

The inception of the Advanced Communication Technology Satellite (ACTS) Project has required as similarly advanced statistical mathematical modeling formalism to describe the behavior of the 30/20 GHz links emanating to and from the earth terminals through the deleterious effects of the earth's atmosphere. The resulting ACTS Rain Attenuation Prediction Model has been thoroughly described in [Manning, 1990]. In the present paper, the basic rudiments of this model will be reviewed; Section 1 covers the static or time-independent portion of the model and Section 2 covers the dynamic of time-dependent portion. The results of Section 2 are then applied to a new approximate solution of the famous problem of the time duration tau of a fade of random process below some threshold. This is known as the fade duration. The new approximate solution was published in Russian [Denisenko] and, unfortunately, was never published into English. Hence, this work is restated following [Denisenko] in Section 3 which is immediately applied to the random rain fade process. The results for all five ACTS propagation sites as well as Tampa, FL are then given.

Manning, Robert M.↗
NASA NTRS2011

Wallops' Low Elevation Link Analysis for the Constellation Launch/Ascent Links

Prior to the redirection of the Constellation Program, the Wallops 11.3-meter ground station was tasked to support the Orion's Dissimilar Voice (DV) link and the Ares's Development Flight Instrument (DFI) link. Detailed analysis of the launch trajectories indicates that during the launch and ascent operation, the critical events of Orion-Ares main engine cut off (MECO) and Separation occur at low elevation angle. We worked with engineers from both Wallops Flight Facility (WFF) and Johnson Space Center (JSC) to perform an intensive measurement and link analysis campaign on the DV and DFI links. The main results were as follows: (1) The DV links have more than 3 dB margin at MECO and Separation. (2) The DFI links have 0 dB margin at Separation during certain weather condition in summer season. (3) Tropospheric scintillation loss is the major impairment at low elevation angle. (4) The current scintillation models in the Recommendation ITU-R P.618 (Propagation data and prediction methods required for the design of Earth-space telecommunication systems), which are based on limited experimental and theoretical work, exhibit idiosyncratic behaviors. We developed an improved model based on the measurements of recent Shuttle mission launch and ascent links and the ITU propagation data. (5) Due to the attitude uncertainty of the Orion-Ares stack, the high dynamics of the launch and ascent trajectory, and the irregularity of the Orion and Ares antenna patterns, we employed new link analysis approach to model the spacecraft antenna gain. In this paper we discuss the details of the aforementioned results.

Cheung, Kar-Ming↗
DOE OSTI2026

Thermoelectric Behavior of Structurally Disordered Lanthanide and Actinide Silicides

Lanthanide and actinide intermetallic materials exhibit intriguing electronic, structural, and magnetic properties arising from their partially filled f orbitals. Strong f-electron correlations can significantly modify the electronic density of states, carrier scattering, and transport behavior, making these systems promising candidates for unconventional thermoelectric materials. In previous studies, single crystals of A1.33T4Al8Si2 (A = Ce, Th, U, Np; T = Co, Ni) were synthesized. This structure consists of ordered TAl2 corrugated double layers separated by disordered An–Si monolayers. The inherent disorder within the An–Si layers has been linked to unusual magnetic behavior, such as spin-glass phenomena, and is expected to strongly influence phonon scattering and charge-carrier transport relevant to thermoelectric performance. However, the thermoelectric properties of this material family have not previously been explored. In this work, DFT calculations were performed to evaluate the electronic density of states, band structures, and thermoelectric properties, including the effects of doping. To validate these predictions, Ce1.33Co4Al8Si2 single crystals were grown and experimentally characterized. Additionally, a new Yb1.33Co4Al8Si2 phase was synthesized and characterized using single-crystal XRD, SEM-EDS, magnetization measurements, and thermoelectric measurements. These results provide insight into structure–property relationships governing thermoelectric behavior in f-electron intermetallics and offer guidance for future thermoelectric materials.

37 - INORGANIC, ORGANIC, PHYSICAL AND ANALYTICAL C↗
DOE OSTI2023

Computational Theory Applied to Nanostructures (Final Report)

Within the nanoscale, phenomena occur that are characteristic of neither the atomic limit, nor the macroscopic limit. In particular, properties that are intensive at the macroscopic scale become size dependent at the nanoscale. These phenomena can have direct consequence for understanding and characterizing materials used in electronic, optical, and micro-mechanical applications related to energy science and technologies. To capitalize properly on predicting and understanding such phenomena in this nano regime, a deeper understanding of the quantum properties of materials will be required. The objective of our research program was to advance the field in computational modeling, analysis and understanding of materials at the nano scale, both in terms of dimensionality and quantum confinement. We employed a multidisciplinary approach, drawing from physics, materials science, chemical engineering and computer science. This research will provide new knowledge, computational techniques, and provide high-potential links across all these disciplines. Over sixty papers were published during the period in question. Ten of the papers were published in high impact journals such as Nano Letters, Nature Communications and Physical Review Letters.

36 MATERIALS SCIENCE↗
DOE OSTI2025

Identifying Hot Spots and Hot Moments of Metabolic Activity in Salt Marsh Sediments through BONCAT-FISH Microscale Mapping (Final Technical Report)

Understanding the biogeography and timing of microbial metabolic activity is a key priority for microbial ecologists. With such knowledge, the cumulative biogeochemical contributions of microbial communities become more predictable, and our ability to both understand the effects of environmental change on microbial activity and build synthetic communities with desired functions will increase substantially. In this project, we advanced this broad, ambitious goal in two substantial ways: we developed a multiplexed Fluorescence In Situ Hybridization (FISH) approach that links microbial identity with metabolic function, and we established a novel Bio-Orthogonal Non-Canonical Amino acid Tagging (BONCAT) technique that can resolve the timing of anabolic activity, providing new resolution of when microbial constituents are growing. We deployed both of these techniques in multiple environmental settings to demonstrate their versatility. At the Little Sippewissett Salt Marsh, we combined a novel dual-BONCAT technique with fluorescence activated cell sorting to determine which population of cells was metabolically active during the day and which was active during the night. We found that Methylobacterium was active during daylight hours, potentially feeding on carbon-rich molecules released from plant roots. Sulfur-cycling microbes dominate the population active during the dark night-time hours. Overall, the work conducted under the auspices of this project developed two promising new techniques for identifying the “hot spots” and “hot moments” of microbial activity in complex communities with taxonomic and functional resolution. We focused largely on a salt marsh sediment context, but are confident that microbial ecologists seeking to understand the microbial role in biogeochemical cycles in a wide range of settings will find our newly developed techniques useful in future work.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

COVID19 Disease Map, a computational knowledge repository of virus–host interaction mechanisms

We need to effectively combine the knowledge from surging literature with complex datasets to propose mechanistic models of SARS-CoV-2 infection, improving data interpretation and predicting key targets of intervention. Here, we describe a large-scale community effort to build an open access, interoperable and computable repository of COVID-19 molecular mechanisms. The COVID-19 Disease Map (C19DMap) is a graphical, interactive representation of disease-relevant molecular mechanisms linking many knowledge sources. Notably, it is a computational resource for graph-based analyses and disease modelling. To this end, we established a framework of tools, platforms and guidelines necessary for a multifaceted community of biocurators, domain experts, bioinformaticians and computational biologists. The diagrams of the C19DMap, curated from the literature, are integrated with relevant interaction and text mining databases. We demonstrate the application of network analysis and modelling approaches by concrete examples to highlight new testable hypotheses. This framework helps to find signatures of SARS-CoV-2 predisposition, treatment response or prioritisation of drug candidates. Such an approach may help deal with new waves of COVID-19 or similar pandemics in the long-term perspective.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2026

The Role of Land‐Atmosphere Feedbacks in Midlatitude Wintertime Surface Temperature Variability

Accurately representing synoptic near-surface temperature variability is crucial to predict weather extremes, yet models remain biased. Existing studies primarily attribute wintertime midlatitude near-surface temperature variability to tropospheric large-scale advection, assuming minimal land influence. However, nudging the model's circulation toward observations yields little improvement in wintertime temperature variance over Northern Hemisphere land, suggesting that land-atmosphere interactions also warrant attention. We introduce a new scaling framework for temperature variance that incorporates local land-atmosphere feedbacks. Comparing our framework to the mixing length approach—which links temperature variance to the meridional temperature gradient and air parcel displacement (mixing length)—shows that land-atmosphere feedbacks are inherently embedded in the mixing length, a connection previously overlooked. Roles of land–atmosphere feedbacks are evaluated via model experiments with perturbed circulation, land, or both. We find that longwave radiative damping dominates temperature variance responses over meridional temperature gradient when both land and circulation are perturbed.

atmosheric science↗