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All sourcesNASA NTRSDOE OSTI
DOE OSTI2021

Attention Guided Lymph Node Malignancy Prediction in Head and Neck Cancer

Accurate lymph node (LN) malignancy classification is essential for treatment target identification in head and neck cancer (HNC) radiation therapy. Given the constraints imposed by relatively small sample sizes in real-world medical applications, to classify LN malignancy status accurately, we proposed an attention-guided classification (AGC) scheme that (1) incorporates human knowledge (ie, LN contours) into model training to guide model’s “learning” direction, alleviating the critical requirement of large training samples by deep learning approaches; and (2) does not require accurate delineation of LNs in the inference stage but can highlight the discriminative region nearby the LN, which is important for malignancy determination.

62 RADIOLOGY AND NUCLEAR MEDICINE↗
DOE OSTI2021

Heat Transfer, Refrigeration and Heat Pumps

The Special Issue entitled “Heat Transfer, Refrigeration and heat Pumps” accepted papers covering a wide range of topics related to heat pumps, thermal energy storage, and low-Global Warming Potential (GWP) alternative refrigerants. Heat pumps play a vital role in providing space conditioning and water heating while utilizing the energy of the environment. Since heat pumps use renewable thermal energy from the environs to provide the desired utility, they contribute to the portfolio of technologies that mitigate carbon footprint. The heat pump may be considered a truly renewable technology if the electricity it uses comes entirely from a renewable source. More accurately, a heat pump is a “low carbon technology”. These perspectives make heat pumps an indispensable option for the future in order to reduce the nocuous human impact on the environment. More efficient heat pumping technologies are being developed for the residential, commercial, and industrial sectors of the economy. Another R&D thrust is heat pumps for cold climates. Hardware components, use of low-GWP refrigerants, and identification of systemic inefficiencies are active research areas. This article is a synopsis of the papers submitted to the Special Issue.

42 ENGINEERING↗
NASA NTRS1999

Cardiovascular Deconditioning in Humans: Alteration in Cardiovascular Regulation and Function During Simulated Microgravity

Alterations in cardiovascular regulation and function that occur during and after space flight have been reported. These alterations are manifested, for example, by reduced orthostatic tolerance upon reentry to the earth's gravity from space. However, the precise physiologic mechanisms responsible for these alterations remain to be fully elucidated. Perhaps, as a result, effective countermeasures have yet to be developed. In this project we apply a powerful, new method - cardiovascular system identification (CSI) - for the study of the effects of space flight on the cardiovascular system so that effective countermeasures can be developed. CSI involves the mathematical analysis of second-to-second fluctuations in non-invasively measured heart rate, arterial blood pressure (ABP), and instantaneous lung volume (ILV - respiratory activity) in order to characterize quantitatively the physiologic mechanisms responsible for the couplings between these signals. Through the characterization of all the physiologic mechanisms coupling these signals, CSI provides a model of the closed-loop cardiovascular regulatory state in an individual subject. The model includes quantitative descriptions of the heart rate baroreflex, autonomic function, as well as other important physiologic mechanisms. We are in the process of incorporating beat-to-beat fluctuations of stroke volume into the CSI technique in order to quantify additional physiologic mechanisms such as those involved in control of peripheral vascular resistance and alterations in cardiac contractility. We apply CSI in conjunction with the two general protocols of the Human Studies Core project. The first protocol involves ground-based, human head down tilt bed rest to simulate microgravity and acute stressors - upright tilt, standing and bicycle exercise - to provide orthostatic and exercise challenges. The second protocol is intended to be the same as the first but with the addition of sleep deprivation to determine whether this contributes to cardiovascular alterations. In these studies, we focus on the basic physiologic mechanisms responsible for the alterations in cardiovascular regulation and function during the simulated microgravity in order to formulate hypotheses regarding what countermeasures are likely to be most effective. Compared to our original proposal, the protocol we are using has been slightly modified to lengthen the bed rest period to 16 days and streamline the data collection. These modifications provide us data on a longer bed rest period and have enabled us to increase our subject throughput. Based on review of our preliminary data we have decided to test a countermeasure which is applied the very end of the bed rest period. We will use the same bed rest protocol to test this countermeasure. We anticipate completing the baseline data collection in our first protocol plus testing of the countermeasure in an additional eight subjects, at which time we plan to initiate the second protocol which includes sleep deprivation. In future studies, we plan to apply CSI to test other potential countermeasures in conjunction with the same bed rest, sleep deprivation and acute stressor models. We also anticipate applying CSI for studying astronauts before and after space flight and ultimately, during space flight. The application of CSI is providing information relevant to the development and evaluation of effective countermeasures allowing humans to adapt appropriately upon re-exposure to a gravity field, and to live and work for longer periods of time in microgravity.

Cohen, Richard↗
NASA NTRS2000

Martian Magmatic-Driven Hydrothermal Sites: Potential Sources of Energy, Water, and Life

Magmatic-driven processes and impact events dominate the geologic record of Mars. Such recorded geologic activity coupled with significant evidence of past and present-day water/ice, above and below the martian surface, indicate that hydrothermal environments certainly existed in the past and may exist today. The identification of such environments, especially long-lived magmatic-driven hydrothermal environments, provides NASA with significant target sites for future sample return missions, since they (1) could favor the development and sustenance of life, (2) may comprise a large variety of exotic mineral assemblages, and (3) could potentially contain water/ice reservoirs for future Mars-related human activities. If life developed on Mars, the fossil record would presumably be at its greatest concentration and diversity in environments where long-term energy sources and water coexisted such as at sites where long-lived, magmatic-driven hydrothermal activity occurred. These assertions are supported by terrestrial analogs. Small, single-celled creatures (prokaryotes) are vitally important in the evolution of the Earth; these prokaryotes are environmentally tough and tolerant of environmental extremes of pH, temperature, salinity, and anoxic conditions found around hydrothermal vents. In addition, there is a great ability for bacteria to survive long periods of geologic time in extreme conditions, including high temperature hydrogen sulfide and sulfur erupted from Mount St. Helens volcano. Our team of investigators is conducting a geological investigation using multiple mission-derived datasets (e.g., existing geologic map data, MOC imagery, MOLA, TES image data, geophysical data, etc.) to identify prime target sites of hydrothermal activity for future hydrological, mineralogical, and biological investigations. The identification of these sites will enhance the probability of success for future missions to Mars.

Anderson, R. C.↗
DOE OSTI2021

Parallel Multi-Omics in High-Risk Subjects for the Identification of Integrated Biomarker Signatures of Type 1 Diabetes

Background: Biomarkers are crucial for detecting early type-1 diabetes (T1D) and preventing significant β-cell loss before the onset of clinical symptoms. Here, we present proof-of-concept studies to demonstrate the potential for identifying integrated biomarker signature(s) of T1D using parallel multi-omics. Methods: Blood from human subjects at high risk for T1D (and healthy controls; n = 4 + 4) was subjected to parallel unlabeled proteomics, metabolomics, lipidomics, and transcriptomics. The integrated dataset was analyzed using Ingenuity Pathway Analysis (IPA) software for disturbances in the at-risk subjects compared to controls. Results: The final quadra-omics dataset contained 2292 proteins, 328 miRNAs, 75 metabolites, and 41 lipids that were detected in all samples without exception. Disease/function enrichment analyses consistently indicated increased activation, proliferation, and migration of CD4 T-lymphocytes and macrophages. Integrated molecular network predictions highlighted central involvement and activation of NF-κB, TGF-β, VEGF, arachidonic acid, and arginase, and inhibition of miRNA Let-7a-5p. IPA-predicted candidate biomarkers were used to construct a putative integrated signature containing several miRNAs and metabolite/lipid features in the at-risk subjects. Conclusions: Preliminary parallel quadra-omics provided a comprehensive picture of disturbances in high-risk T1D subjects and highlighted the potential for identifying associated integrated biomarker signatures. With further development and validation in larger cohorts, parallel multi-omics could ultimately facilitate the classification of T1D progressors from non-progressors.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2023

CRISPR-COPIES: Web Tool

CRISPR/Cas system has emerged as a powerful genome-editing tool for metabolic engineering and human gene therapy. However, the conundrum of where to integrate heterologous genes on the chromosome using the CRISPR/Cas system remains an open question. Selecting a site for gene integration requires incorporation of complex criteria such as factors involved in CRISPR/Cas-mediated integration, genetic stability, and gene expression and therefore, usually requires strenuous characterization of sites on particular or different chromosomal locations. To address these issues, we developed CRISPR-COPIES, a COmputational Pipeline for the Identification of CRISPR/Cas-facilitated intEgration Sites. The tool applies ScaNN, a state-of-the-art model on the embedding-based nearest neighbor search for fast and accurate off-target search and can identify genome-wide intergenic sites for most bacterial and fungal genomes within minutes. This submission contains the code we developed to create a user-friendly web interface for CRISPR-COPIES (https://biofoundry.web.illinois.edu/copies/). We anticipate CRISPR-COPIES will serve as a useful tool for targeted DNA integration and aid in the characterization of synthetic biology toolkits, rapid strain construction to produce valuable biochemicals, and human gene and cell therapy.

Bioinformatics↗
DOE OSTI2020

Data for Training and Testing Radiation Detection Algorithms in an Urban Environment

The US government routinely performs radiological response deployments to search for the presence of illicit nuclear materials (e.g., highly enriched uranium and weapons-grade plutonium) in a specified area. The deployments can be intelligence driven, in support of law enforcement, and for planned events such as WrestleMania, presidential inaugurations, or political conventions. In a typical deployment, radiation detection systems carried by human operators or mounted on vehicles move in a clearing pattern through the search area. Search teams rely on radiation detection algorithms running on these systems in real time to alert them to the presence of an illicit threat source. The detection and identification of sources is complicated by large variation of natural radiation background throughout a search area and the potential presence of localized non-threat sources such as patients undergoing treatment with medical isotopes. As a result, detection algorithms must be carefully balanced between missing real sources (false negatives) and reporting too many false alarms (false positives).The purpose of this data set is to spur innovations in detecting, identifying, and localizing nuclear materials inurban search missions.

07 ISOTOPE AND RADIATION SOURCES↗
NASA NTRS2001

An Overview of Observations by the Cassini Radio and Plasma Wave Investigation at Earth

On August 18, 1999, the Cassini spacecraft flew by Earth at an altitude of 1186 km on its way to Saturn. Although the flyby was performed exclusively to provide the spacecraft with sufficient velocity to get to Saturn, the radio and plasma wave science (RPWS) instrument, along with several others, was operated to gain valuable calibration data and to validate the operation of a number of capabilities. In addition, an opportunity to study the terrestrial radio and plasma wave environment with a highly capable instrument on a swift fly-through of the magnetosphere was afforded by the encounter. This paper provides an overview of the RPWS observations, at Earth, including the identification of a number of magnetospheric plasma wave modes, an accurate measurement of the plasma density over a significant portion of the trajectory using the natural wave spectrum in addition to a relaxation sounder and Langmuir probe, the detection of natural and human-produced radio emissions, and the validation of the capability to measure the wave normal angle and Poynting flux of whistler-mode chorus emissions. The results include the observation of a double-banded structure at closest' approach including a band of Cerenkov emission bounded by electron plasma and upper hybrid frequencies and an electron cyclotron harmonic band just above the second harmonic of the electron cyclotron frequency. In the near-Earth plasma sheet, evidence for electron phase space holes is observed, similar to those first reported by Geotail in the magnetotail. The wave normal analysis confirms the Polar result that chorus is generated very close to the magnetic equator and propagates to higher latitudes. The integrated power flux of auroral kilometric radiation is also used to identify a series of substorms observed during the outbound passage through the magnetotail.

Kurth, W. S.↗
NASA NTRS2012

Social Semantics for an Effective Enterprise

An evolution of the Semantic Web, the Social Semantic Web (s2w), facilitates knowledge sharing with "useful information based on human contributions, which gets better as more people participate." The s2w reaches beyond the search box to move us from a collection of hyperlinked facts, to meaningful, real time context. When focused through the lens of Enterprise Search, the Social Semantic Web facilitates the fluid transition of meaningful business information from the source to the user. It is the confluence of human thought and computer processing structured with the iterative application of taxonomies, folksonomies, ontologies, and metadata schemas. The importance and nuances of human interaction are often deemphasized when focusing on automatic generation of semantic markup, which results in dissatisfied users and unrealized return on investment. Users consistently qualify the value of information sets through the act of selection, making them the de facto stakeholders of the Social Semantic Web. Employers are the ultimate beneficiaries of s2w utilization with a better informed, more decisive workforce; one not achieved with an IT miracle technology, but by improved human-computer interactions. Johnson Space Center Taxonomist Sarah Berndt and Mike Doane, principal owner of Term Management, LLC discuss the planning, development, and maintenance stages for components of a semantic system while emphasizing the necessity of a Social Semantic Web for the Enterprise. Identification of risks and variables associated with layering the successful implementation of a semantic system are also modeled.

Berndt, Sarah↗
NASA NTRS2012

Identification of Time-Varying Pilot Control Behavior in Multi-Axis Control Tasks

Recent developments in fly-by-wire control architectures for rotorcraft have introduced new interest in the identification of time-varying pilot control behavior in multi-axis control tasks. In this paper a maximum likelihood estimation method is used to estimate the parameters of a pilot model with time-dependent sigmoid functions to characterize time-varying human control behavior. An experiment was performed by 9 general aviation pilots who had to perform a simultaneous roll and pitch control task with time-varying aircraft dynamics. In 8 different conditions, the axis containing the time-varying dynamics and the growth factor of the dynamics were varied, allowing for an analysis of the performance of the estimation method when estimating time-dependent parameter functions. In addition, a detailed analysis of pilots adaptation to the time-varying aircraft dynamics in both the roll and pitch axes could be performed. Pilot control behavior in both axes was significantly affected by the time-varying aircraft dynamics in roll and pitch, and by the growth factor. The main effect was found in the axis that contained the time-varying dynamics. However, pilot control behavior also changed over time in the axis not containing the time-varying aircraft dynamics. This indicates that some cross coupling exists in the perception and control processes between the roll and pitch axes.

Zaal, Peter M. T.↗
DOE OSTI2021

Automatic identification and quantification of dense microcracks in high-performance fiber-reinforced cementitious composites through deep learning-based computer vision

Highlights: • A method is presented to detect, locate, quantify, and visualize dense microcracks in HPFRCC. • Quantification of dense microcracks is realized using deep learning method for the first time. • The presented method uses deep learning models that are trained using a realistic dataset size. • The presented method has a high computation efficiency for identifying and quantifying cracks. • The presented method provides crack width with errors up to 50 μm and a R{sup 2} value of 0.984. High-performance fiber-reinforced cementitious composites (HPFRCCs) feature high mechanical strengths, crack resistance, and durability. Under excessive loading, HPFRCCs demonstrate dense microcracks that are difficult to identify using existing methods. This study presents a computer vision method for identification, quantification, and visualization of microcracks in HPFRCCs based on deep learning. The presented method integrates multiple deep learning models and computer vision techniques in a hierarchical architecture. The crack pattern (e.g., number, width, and spacing of cracks) are automatically determined from pictures without human intervention. This study shows that the presented method achieves an accuracy of 0.992 for crack detection and an accuracy finer than 50 μm (R{sup 2} > 0.984) for quantification of crack width when deep learning models are trained using only 200 pictures of HPFRCCs and 200 pictures of conventional concrete with incorporation of data augmentation. The presented method is expected to be also applicable to other materials featuring complex cracks.

36 MATERIALS SCIENCE↗
NASA NTRS1999

Exercise Countermeasures for Bone Loss During Space Flight: A Method for the Study of Ground Reaction Forces and Their Implications for Bone Strain

The human zero-gravity locomotion simulator and the cadaver simulator offer a powerful combination for the study of the implications of exercise for maintaining bone quality during space flight. Such studies, when compared with controlled in-flight exercise programs, could help in the identification of a strain threshold for the prevention of bone loss during space flight.

Peterman, M.↗
NASA NTRS1989

Comparison of thermal (FLIR) and television images

The human eye is sensitive to electromagnetic radiation in the 0.4 to 0.7 micron band (light). Thermal imaging (TI) systems are sensitive to heat radiation in the infrared band (3-5 or 8-14 microns) and are capable of transforming the distribution of relative temperatures in a scene into a visible TV image. The present experiment was designed to investigate the impact of the difference between TIs and regular TV images on the detection and identification of natural and man-made targets. Parallel TV and TI videotapes were recorded during helicopter flights. Fifteen subjects who viewed both the TV and the TI images (separately), were asked to detect predefined targets and to identify features pointed out to them by the experimenter. In general, performance with TVs was superior to performance with TIs in terms of response times and errors. However, subjects required significantly less time to detect man-made objects with TIs than with TVs. The correlation between the performance of the same task with the two kinds of images was very low. The results are discussed in terms of image quality and in terms of humans' internal representations of natural categories.

Brickner, Michael S.↗
DOE OSTI2020

Automated Threat Recognition For Aviation Security Applications

We have developed a framework for automated threat recognition (ATR) of explosive threat materials for both single-energy and dual-energy X-ray CT systems. Under this framework, two different types of ATR have been developed. The first type of ATR employs supervised machine learning with statistical characterization of target materials for threat identification training. The reliance only on statistical characterization information for threat training uniquely enables this style of ATR to adapt quickly to evolving threats. The second type of ATR employs deep learning through convolutional neural networks. Convolutional neural networks are attractive due to their human-like capacity for learning and strong ability to identify trends and patterns. Although this method is more powerful than the first type, it requires large amounts of training data and therefore is less agile. Each ATR performs threat characterization at the voxel neighborhood level. This approach avoids the use of threat shape as a detection criterion, which is prohibited by DHS and TSA guidelines.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2021

Combining Multicolor FISH with Fluorescence Lifetime Imaging for Chromosomal Identification and Chromosomal Sub Structure Investigation

Understanding the structure of chromatin in chromosomes during normal and diseased state of cells is still one of the key challenges in structural biology. Using DAPI staining alone together with Fluorescence lifetime imaging (FLIM), the environment of chromatin in chromosomes can be explored. Fluorescence lifetime can be used to probe the environment of a fluorophore such as energy transfer, pH and viscosity. Multicolor FISH (M-FISH) is a technique that allows individual chromosome identification, classification as well as assessment of the entire genome. Here we describe a combined approach using DAPI as a DNA environment sensor together with FLIM and M-FISH to understand the nanometer structure of all 46 chromosomes in the nucleus covering the entire human genome at the single cell level. Upon DAPI binding to DNA minor groove followed by fluorescence lifetime measurement and imaging by multiphoton excitation, structural differences in the chromosomes can be studied and observed. This manuscript provides a blow by blow account of the protocol required to perform M-FISH-FLIM of whole chromosomes.

59 BASIC BIOLOGICAL SCIENCES↗
NASA NTRS1991

Spectral analysis of resting cardiovascular variables and responses to oscillatory LBNP before and after 6 degree head dowm bedrest

A major focus of our research program is to develop noninvasive procedures for determining changes in cardiovascular function associated with the null gravity environment. We define changes in cardiovascular function to be (1) the result of the regulatory system operating at values different from 'normal' but with an overall control system basically unchanged by the null gravity exposure, or (2) the result of operating with a control system that has significantly different regulatory characteristics after an exposure. To this end, we have used a model of weightlessness that consisted of exposing humans to 2 hrs. in the launch position, followed by 20 hrs. of 6 deg head down bedrest. Our principal objective was to use this model to measure cardiovascular responses to the 6 deg head down bedrest protocol and to develop the most sensitive 'systems identification' procedure for indicating change. A second objective, related to future experiments, is to use the procedure in combination with experiments designed to determine the degree to which a regulatory pathway has been altered and to determine the mechanisms responsible for the changes.

Knapp, Charles F.↗
NASA NTRS2011

Volatile Analyzer for Lunar Polar Missions

One of the major questions remaining for the future exploration of the Moon by humans concerns the presence of volatiles on our nearest neighbor in space. Observational studies, and investigations involving returned lunar samples and using robotic spacecraft infer the existence of volatile compounds particularly water [1]. It seems very likely that a volatile component will be concentrated at the poles in circumstances where low-temperatures exist to provide cryogenic traps. However, the full inventory of species, their concentration and their origin and sources are unknown. Of particular importance is whether abundances are sufficient to act as a resource of consumables for future lunar expeditions especially if a long-term base involving humans is to be established. To address some of these issues requires a lander designed specifically for operation at a high-lunar latitude. A vital part of the payload needs to be a volatile analyzer such as the Gas Analysis Package specifically designed for identification quantification of volatile substances and collecting information which will allow the origin of these volatiles to be identified [1]. The equipment included, particularly the gas analyzer, must be capable of operation in the extreme environmental conditions to be encountered. No accurate information yet exists regarding volatile concentration even for sites closer to the lunar equator (because of contamination). In this respect it will be important to understand (and thus limit) contamination of the lunar surface by extraneous material contributed from a variety of sources. The only data for the concentrations of volatiles at the poles comes from orbiting spacecraft and whilst the levels at high latitudes may be greater than at the equator, the volatile analyzer package under consideration will be designed to operate at the highest specifications possible and in a way that does not compromise the data.

Gibons, Everett K.↗