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At least 1,171 records · Page 65

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DOE OSTI2011

Plasma Biomarker Profiles Differ Depending on Breast Cancer Subtype but RANTES is Consistently Increased

Background: Current biomarkers for breast cancer have little potential for detection. We determined if breast cancer subtypes influence circulating protein biomarkers. Methods: A sandwich-ELISA microarray platform was used to evaluate 23 candidate biomarkers in plasma samples that were obtained from subjects with either benign breast disease or invasive breast cancer. All plasma samples were collected at the time of biopsy, after a referral due to a suspicious screen (e.g., mammography). Cancer samples were evaluated based on breast cancer subtypes, as defined by the HER2 and estrogen receptor statuses. Results: Ten proteins were statistically altered in at least one breast cancer subtype, including four epidermal growth factor receptor ligands, two matrix metalloproteases, two cytokines, and two angiogenic factors. Only one cytokine, RANTES, was significantly increased (P<0.01 for each analysis) in all four subtypes, with areas under receiver operating characteristic curves (AUC) that ranged from 0.76 to 0.82, depending on cancer subtype. The best AUC values were observed for analyses that combined data from multiple biomarkers, with values ranging from 0.70 to 0.99, depending on the cancer subtype. Although the results for RANTES are consistent with previous publications, the multi-assay results need to be validated in independent sample sets. Conclusions: Different breast cancer subtypes produce distinct biomarker profiles, and circulating protein biomarkers have potential to differentiate between true and false positive screens for breast cancer. Impact: Subtype-specific biomarker panels may be useful for detecting breast cancer or as an adjunct assay to improve the accuracy of current screening methods.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2016

A Genomic Resource for the Development, Improvement, and Exploitation of Sorghum for Bioenergy

With high productivity and stress tolerance, numerous grass genera of the Andropogoneae have emerged as candidates for bioenergy production. To optimize these candidates, research examining the genetic architecture of yield, carbon partitioning, and composition is required to advance breeding objectives. Significant progress has been made developing genetic and genomic resources for Andropogoneae, and advances in comparative and computational genomics have enabled research examining the genetic basis of photosynthesis, carbon partitioning, composition, and sink strength. To provide a pivotal resource aimed at developing a comparative understanding of key bioenergy traits in the Andropogoneae, we have established and characterized an association panel of 390 racially, geographically, and phenotypically diverse Sorghum bicolor accessions with 232,303 genetic markers. Sorghum bicolor was selected because of its genomic simplicity, phenotypic diversity, significant genomic tools, and its agricultural productivity and resilience. We have demonstrated the value of sorghum as a functional model for candidate gene discovery for bioenergy Andropogoneae by performing genome-wide association analysis for two contrasting phenotypes representing key components of structural and non-structural carbohydrates. We identified potential genes, including a cellulase enzyme and a vacuolar transporter, associated with increased non-structural carbohydrates that could lead to bioenergy sorghum improvement. Although our analysis identified genes with potentially clear functions, other candidates did not have assigned functions, suggesting novel molecular mechanisms for carbon partitioning traits. These results, combined with our characterization of phenotypic and genetic diversity and the public accessibility of each accession and genomic data, demonstrate the value of this resource and provide a foundation for future improvement of sorghum and related grasses for bioenergy production.

09 BIOMASS FUELS↗

DOE OSTI2013

The MCDB System for Management and Analysis of Petabyte-Scale Uncertain Data

Analysts working with very large data sets often use statistical models to “guess” at unknown, inaccurate, or missing information associated with the data. For example, a distant object viewed through an optical lens will have its position slightly shifted by imperfections in the lens. Thus, rather than considering the object’s observed position to be absolutely correct, it makes sense to take into account the lens’s imperfections to obtain a probabilistic guess as to the object’s true position. For another example, it might be important to associate some sort of error distribution with each of the individual sensors in an array of magnetometers. This error distribution may be complex and include spatially-driven covariances, because errors in nearby sensors are likely to be correlated (caused, for example, by the presence of some nearby, fixed metal object). This project is concerned with the design and implementation of a prototype data management system called the Monte Carlo Database System, or MCDB for short. MCDB allows an expert-level analyst or statistician to attach arbitrary stochastic models to very large data sets in order to “guess” the values for unknown or inaccurate data, such as the actual position of the observed object in the lens example above. When the resulting data set is analyzed, the underlying stochastic models are used to generate hundreds or thousands of possible data set instances, and each of those possible instances is analyzed separately by MCDB. Thus, MCDB does not just give a single answer to the analysis, but it actually gives an empirical distribution of query results that embody the underlying uncertainty, and can in turn be analyzed using standard statistical techniques. The stochastic models in MCDB are implemented as user-defined, external C++ libraries called Variable Generation functions (VG functions for short). Because the VG function interface is exceedingly general, it allows MCDB to be used in a very wide variety of application domains, in conjunction with virtually any stochastic model. Ultimately, we ended up calling the system that we developed over the course of the project SimSQL, to denote the fact that it allowed for stochastic simulation of data. The software developed during the lifetime of the project is available for download from the SimSQL project website: http://cmj4.web.rice.edu/SimSQL/SimSQL.html.

42 ENGINEERING↗

NASA NTRS1972

Application of satellite infrared measurements to mapping sea ice

The application of the ITOS-SR (scanning radiometer) infrared measurements for mapping sea ice was examined. The work included detailed mapping of ice features visible in the ITOS nighttime DRSR (direct readout scanning radiometer) pictorial data and in Nimbus summertime film strip data. Analyses of digital temperature values from computer printouts of ITOS stored data and from Nimbus data listings were also undertaken, and densitometric measurements of both ITOS and Nimbus data were initiated.

Barnes, J. C.↗

NASA NTRS1993

Development of the Monolith Froth Reactor for Catalytic Wet Oxidation of CELSS Model Wastes

The aqueous phase oxidation of acetic acid, used as a model compound for the treatment of CELSS (Controlled Ecological Life Support System) waste, was carried out in the monolith froth reactor which utilizes two-phase flow in the monolith channels. The catalytic oxidation of acetic acid was carried out over a Pt/Al2O3 catalyst at temperatures and pressures below the critical point of water. The effect of externally controllable parameters (temperature, liquid flow rate, distributor plate orifice size, pitch, and catalyst distance from the distributor plate) on the rate of acetic acid oxidation was investigated. Results indicate reaction rate increased with increasing temperature and exhibited a maximum with respect to liquid flow rate. The apparent activation energy calculated from reaction rate data was 99.7 kJ/mol. This value is similar to values reported for the oxidation of acetic acid in other systems and is comparable to intrinsic values calculated for oxidation reactions. The kinetic data were modeled using simple power law kinetics. The effect of "froth" feed system characteristics was also investigated. Results indicate that the reaction rate exhibits a maximum with respect to distributor plate orifice size, pitch, and catalyst distance from the distributor plate. Fundamental results obtained were used to extrapolate where the complete removal of acetic acid would be obtained and for the design and operation of a full scale CELSS treatment system.

Fisher, John W.↗

NASA NTRS1995

Development of the Monolith Froth Reactor for Catalytic Wet Oxidation of CELSS Model Wastes

The aqueous phase oxidation of acetic acid, used as a model compound for the treatment of CELSS (Controlled Ecological Life Support System) waste, was carried out in the monolith froth reactor which utilizes two-phase flow in the monolith channels. The catalytic oxidation of acetic acid was carried out over a Pt/Al2O3 catalyst, prepared at The University of Tulsa, at temperatures and pressures below the critical point of water. The effect of externally controllable parameters (temperature, liquid flow rate, distributor plate orifice size, pitch, and catalyst distance from the distributor plate) on the rate of acetic acid oxidation was investigated. Results indicate reaction rate increased with increasing temperature and exhibited a maximum with respect to liquid flow rate. The apparent activation energy calculated from reaction rate data was 99.7 kJ/mol. This value is similar to values reported for the oxidation of acetic acid in other systems and is comparable to intrinsic values calculated for oxidation reactions. The kinetic data were modeled using simple power law kinetics. The effect of "froth" feed system characteristics was also investigated. Results indicate that the reaction rate exhibits a maximum with respect to distributor plate orifice size, pitch, and catalyst distance from the distributor plate. Fundamental results obtained were used to extrapolate where the complete removal of acetic acid would be obtained and for the design and operation of a full scale CELSS treatment system.

Abraham, Martin↗

NASA NTRS2009

DSN Data Visualization Suite

The DSN Data Visualization Suite is a set of computer programs and reusable Application Programming Interfaces (APIs) that assist in the visualization and analysis of Deep Space Network (DSN) spacecraft-tracking data, which can include predicted and actual values of downlink frequencies, uplink frequencies, and antenna-pointing angles in various formats that can include tables of values and polynomial coefficients. The data can also include lists of antenna-pointing events, lists of antenna- limit events, and schedules of tracking activities. To date, analysis and correlation of these intricately related data before and after tracking have been difficult and time-consuming. The DSN Data Visualization Suite enables operators to quickly diagnose tracking-data problems before, during, and after tracking. The Suite provides interpolation on demand and plotting of DSN tracking data, correlation of all data on a given temporal point, and display of data with color coding configurable by users. The suite thereby enables rapid analysis of the data prior to transmission of the data to DSN control centers. At the control centers, the same suite enables operators to validate the data before committing the data to DSN subsystems. This software is also Web-enabled to afford its capabilities to international space agencies.

Bui, Bach X.↗

DOE OSTI2016

A Reasoning And Hypothesis-Generation Framework Based On Scalable Graph Analytics

Finding actionable insights from data has always been difficult. As the scale and forms of data increase tremendously, the task of finding value becomes even more challenging. Data scientists at Oak Ridge National Laboratory are leveraging unique leadership infrastructure (e.g. Urika-XA and Urika-GD appliances) to develop scalable algorithms for semantic, logical and statistical reasoning with unstructured Big Data. We present the deployment of such a framework called ORiGAMI (Oak Ridge Graph Analytics for Medical Innovations) on the National Library of Medicine s SEMANTIC Medline (archive of medical knowledge since 1994). Medline contains over 70 million knowledge nuggets published in 23.5 million papers in medical literature with thousands more added daily. ORiGAMI is available as an open-science medical hypothesis generation tool - both as a web-service and an application programming interface (API) at http://hypothesis.ornl.gov . Since becoming an online service, ORIGAMI has enabled clinical subject-matter experts to: (i) discover the relationship between beta-blocker treatment and diabetic retinopathy; (ii) hypothesize that xylene is an environmental cancer-causing carcinogen and (iii) aid doctors with diagnosis of challenging cases when rare diseases manifest with common symptoms. In 2015, ORiGAMI was featured in the Historical Clinical Pathological Conference in Baltimore as a demonstration of artificial intelligence to medicine, IEEE/ACM Supercomputing and recognized as a Centennial Showcase Exhibit at the Radiological Society of North America (RSNA) Conference in Chicago. The final paper will describe the workflow built for the Cray Urika-XA and Urika-GD appliances that is able to reason with the knowledge of every published medical paper every time a clinical researcher uses the tool.

graph analytics↗

DOE OSTI2019

Error detection and correction utilizing locally stored parity information

A processing system includes a memory coupled to a processor. The memory stores data blocks, with each data block having a separate associated checksum value stored along with the data block in the memory. The processor has a storage location that stores parity information for the data blocks, with the parity information having a plurality of parity blocks. Each parity block represents a parity of a corresponding set of data blocks. The parity blocks can be accessed for use in error detection and correction schemes used by the processing system.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2024

Chloroform Fumigation Extraction for Microbial Biomass and Dissolved Organic Carbon from SPRUCE, Marcell Experimental Forest, Minnesota, 2021, 2022, and 2024

This data set provides the results for chloroform fumigation extraction (CFE) of peat samples collected from ambient and experimental plots in the Spruce and Peatland Responses Under Environmental Change (SPRUCE) Experiment site in June and August of 2021, June of 2022, and June, August, and October of 2024. The SPRUCE Experiment site is in the Marcell Experimental Forest in northern Minnesota, USA. The data set includes values for microbial biomass carbon (MBC), microbial biomass nitrogen (MBN), dissolved organic carbon (DOC), dissolved nitrogen (DN), moisture content (MC, available for 2021 and 2022 only) and gravimetric water content (GWC) at 11 depth increments of two-meter peat cores taken from 12 sampling sites at SPRUCE (10 temperature treatment enclosures, 2 ambient temperature treatment enclosures). The sample analysis followed standard methods. The samples were analyzed using a Shimadzu Total Organic Carbon/Nitrogen (TOC/N) analyzer (TOC-V and TOC-L; 2021-2022) or an Elementar vario TOC Cube (2024), liquid catalytic oxidation combustion analyzers for total carbon and nitrogen analysis. This dataset contains two data files in comma separate (.csv) format. Additional metadata are provided: two data dictionaries and a file-level metadata file in comma separate (.csv) format and a user guide in PDF (*.pdf) format.

dissolved nitrogen↗

DOE OSTI2016

SU-F-T-521: Flattening-Filter-Free Beam Parameters Comparison From Different Linac Machine Types

Purpose: Novel linac machines, TrueBeam (TB) and Elekta Versa have updated head designing and software control system, include flattening-filter-free (FFF) photon and electron beams. Later on FFF beams were also introduced on C-Series machines. In this work FFF beams for same energy 6MV but from different machine versions were studied with reference to beam data parameters. Methods: The 6MV-FFF percent depth doses, profile symmetry and flatness, dose rate tables, and multi-leaf collimator (MLC) transmission factors were measured during commissioning process of both C-series and Truebeam machines. The scanning and dosimetric data for 6MV-FFF beam from Truebeam and C-Series linacs was compared. A correlation of 6MV-FFF beam from Elekta Versa with that of Varian linacs was also found. Results: The scanning files were plotted for both qualitative and quantitative analysis. The dosimetric leaf gap (DLG) for C-Series 6MV-FFF beam is 1.1 mm. Published values for Truebeam dosimetric leaf gap is 1.16 mm. 6MV MLC transmission factor varies between 1.3 % and 1.4 % in two separate measurements and measured DLG values vary between 1.32 mm and 1.33 mm on C-Series machine. MLC transmission factor from C-Series machine varies between 1.5 % and 1.6 %. Some of the measured data values from C-Series FFF beam are compared with Truebeam representative data. 6MV-FFF beam parameter values like dmax, OP factors, beam symmetry and flatness and additional parameters for C-Series and Truebeam liancs will be presented and compared in graphical form and tabular data form if selected. Conclusion: The 6MV flattening filter (FF) beam data from C-Series & Truebeam and 6MV-FFF beam data from Truebeam has already presented. This particular analysis to compare 6MV-FFF beam from C-Series and Truebeam provides opportunity to better elaborate FFF mode on novel machines. It was found that C-Series and Truebeam 6MV-FFF dosimetric and beam data was quite similar.

60 APPLIED LIFE SCIENCES↗

NASA NTRS1991

Use of the Long Duration Exposure Facility's thermal measurement system for the verification of thermal models

Results are presented of the comparison between the Long Duration Exposure Facility (LDEF) Thermal Measurements Systems (THERM) recorded temperature data and the predicted values as calculated prior to the LDEF deployment. The postflight thermal model was verified and calculated temperature uncertainties were reduced to under + or - 18 F from the preflight uncertainties of + or - 40 F. The THERM consisted of 8 temperature sensors, a shared tape recorder, a standard LDEF flight battery, and an electronics control box. The temperatures were measured at selected locations on the LDEF structure interior during the first 490 days of flight and recorded for postflight analysis. After the recorder was recovered from space, the tape recorder was recovered and the data reduced for comparison to the LDEF predicted temperatures. By comparing the calculated values to the measured data, a verified thermal model that presents the best agreement with the THERM data was obtained. The THERM experiment provided an economical way of performing a postflight verification of the LDEF Thermal Model by recording a limited number of flight temperatures on typical locations of the LDEF structure.

Berrios, William M.↗

NASA NTRSDate not supplied

GEOS Constituent Data Assimilation Beyond Aura MLS: Assimilating NASA SAGE III/ISS Profiles of Stratospheric Water Vapor

Ozone and water vapor in the lower stratosphere are important trace gases for atmospheric chemistry and radiative budget. The Stratospheric Aerosol and Gas Experiment (SAGE) missions have been crucial in monitoring the stratospheric ozone loss and the subsequent recovery as well as the trends in water vapor linked to surface temperature trends. The SAGE III instrument aboard the International Space Station (ISS) continues the SAGE mission record, with high vertical resolution profiles of ozone and water vapor available since mid 2017. The NASA GEOS Earth system model has the new capability to assimilate multi-constituents from ground and space-based instruments using the GEOS Constituent Data Assimilation System (CoDAS). The recently released MERRA-2 Stratospheric Composition Reanalysis with Aura MLS (M2-SCREAM) assimilates version 4.2 MLS ozone, water vapor and other chemically-reactive species with the NASA GEOS model coupled to a stratospheric-only chemistry mechanism and transport constrained to the MERRA-2 reanalysis. While the number of solar occultation observations a day from SAGE III/ISS is about 1% of the total number of profiles observed globally by MLS, the chemical timescales of ozone and water vapor in the lower stratosphere are long enough that the SAGE III/ISS data may provide a useful constraint on the assimilated product. Using the same GEOS CoDAS configuration as M2-SCREAM, we will present a series of experiments to investigate if water vapor trends are consistent with the assimilation of SAGE observations with and without Aura retrievals, and to determine if the assimilation of SAGE observations produces a steady product for trend analysis, especially as the end of the Aura mission nears. In our experiments, assimilating only SAGE III/ISS water vapor profiles results in water vapor fields more consistent with experiments that assimilate MLS v5; however, in the polar regions SAGE III/ISS observations are not available and the modelled values are unconstrained. We are encouraged by the positive benefit assimilating the less frequent SAGE III/ISS observations has on stratospheric composition. Sensitivity experiments such as these will allow us to assess the added value of SAGE data for continued monitoring of the stratospheric composition for climate and ozone recovery assessments.

K Emma Knowland↗

NASA NTRSDate not supplied

GEOS Constituent Data Assimilation Beyond Aura MLS: Assimilating NASA SAGE III/ISS Profiles of Stratospheric Water Vapor and Ozone

Ozone and water vapor in the lower stratosphere are important trace gases for atmospheric chemistry and radiative budget. The Stratospheric Aerosol and Gas Experiment (SAGE) missions have been crucial in monitoring the stratospheric ozone loss and the subsequent recovery as well as the trends in water vapor linked to surface temperature trends. The SAGE III instrument aboard the International Space Station (ISS) continues the SAGE mission record, with high vertical resolution profiles of ozone and water vapor available since mid 2017. The NASA GEOS Earth system model has the new capability to assimilate multi-constituents from ground and space-based instruments using the GEOS Constituent Data Assimilation System (CoDAS). The recently released MERRA-2 Stratospheric Composition Reanalysis with Aura MLS (M2-SCREAM) assimilates version 4.2 MLS ozone, water vapor and other chemically-reactive species with the NASA GEOS model coupled to a stratospheric-only chemistry mechanism and transport constrained to the MERRA-2 reanalysis. While the number of solar occultation observations a day from SAGE III/ISS is about 1% of the total number of profiles observed globally by MLS, the chemical timescales of ozone and water vapor in the lower stratosphere are long enough that the SAGE III/ISS data may provide a useful constraint on the assimilated product. Using the same GEOS CoDAS configuration as M2-SCREAM, we will present a series of experiments to investigate if ozone and water vapor trends are consistent with the assimilation of SAGE observations with and without Aura retrievals, and to determine if the assimilation of SAGE observations produces a steady product for trend analysis, especially as the end of the Aura mission nears. In our experiments, assimilating only SAGE III/ISS water vapor profiles results in water vapor fields more consistent with experiments that assimilate MLS v5; however, in the polar regions SAGE III/ISS observations are not available and the values are unconstrained. We are encouraged by the positive benefit assimilating the less frequent SAGE III/ISS observations has on stratospheric composition. Sensitivity experiments such as these will allow us to assess the added value of SAGE data for continued monitoring of the stratospheric composition for climate and ozone recovery assessments.

SAGE↗

NASA NTRS1988

Airborne 20-65 micron spectrophotometry of Comet Halley

Observations of Comet Halley with a grating spectrometer on board the Kuiper Airborne Observatory on four nights in Dec. 1985 to Apr. 1986 are reported. Low resolution 20 to 65 micrometer spectra of the nucleus with a 40 arcsec FWHM beam was obtained on 17 Dec. 1985, and on 15 and 17 Apr. 1986. On 20 Dec. 1985, only a 20 to 35 micrometer spectrum was obtained. Most of the data have been discussed in a paper where the continuum was dealt with. In that paper, models were fit to the continuum that showed that more micron sized particles of grain similar to amorphous carbon were needed to fit the spectrum than were allowed by the Vega SP-2 mass distribution, or that a fraction of the grains had to be made out of a material whose absorption efficiency fell steeper than lambda sup -1 for lambda greater than 20 micrometers. Spectra was also presented taken at several points on the coma on 15 Apr. which showed that the overall shape to the spectrum is the same in the coma. Tabulated values of the data and calibration curves are available. The spectral features are discussed.

Glaccum, William↗

NASA NTRS1992

Long Duration Exposure Facility (LDEF) attitude measurements of the interplanetary dust experiment

The Long Duration Exposure Facility (LDEF) Interplanetary Dust Experiment (IDE) was unique in providing a time history of impacts of micron-sized particles on six orthogonal faces of LDEF during the first year in orbit. The value of this time resolved data depended on and was enhanced by the proper operation of some basic LDEF systems. Thus, the value of the data is greatly enhanced when the location and orientation of LDEF is known for each time of impact. The location and velocity of LDEF as a function of time can be calculated from the 'two-line elements' published by GSFC during the first year of the LDEF mission. The attitude of LDEF was passively stabilized in a gravity-gradient mode and a magnetically anchored viscous damper was used to dissipate roll, pitch, and yaw motions. Finally, the IDE used a standard LDEF Experiment Power and Data System (EPDS) to collect and store data and also to provide a crystal derived clock pulse (1 count every 13.1072 seconds) for all IDE time measurements. All that remained for the IDE was to provide a system to calibrate the clock, eliminating accumulative errors, and also verify the attitude of LDEF. The IDE used solar cells on six orthogonal faces to observe the LDEF sunrise and provide data about the LDEF attitude. The data was recorded by the EPDS about 10 times per day for the first 345 days of the LDEF mission. This data consist of the number of IDE counts since the last LDEF sunrise and the status of the six solar cells (light or dark) at the time of the last IDE count. The EPDS determined the time that data was recorded and includes, with each record, the master EPDS clock counter (1 count every 1.6384 seconds) that provided the range and resolution for time measurements. The IDE solar cells provided data for an excellent clock calibration, meeting their primary purpose, and the time resolved LDEF attitude measurements that can be gleaned from this data are presented.

Kassel, Philip C., Jr.↗

DOE OSTI2022

UAE6 - Wind Tunnel Tests Data - UAE6 - Sequence S - Raw Data

Sequences S, T, and U: Upwind, No Probes (F); Upwind 2° Pitch (F); Upwind 4° Pitch (F) This test sequence used an upwind, rigid turbine with a 0° cone angle. The wind speed ranged from 5 m/s to 25 m/s. Yaw angles of 0° to 180° were achieved for Sequence S, but the yaw angle remained at 0° for Sequences T and U. The blade tip pitch was 3° for Sequence S, 2° for Sequence T, and 4° for Sequence U. These three sequences were interleaved during testing because the pitch angle change was easily made by the turbine operator. The rotor rotated at 72 RPM. Blade pressure measurements were collected. The five-hole probes were removed and the plugs were installed. Plastic tape 0.03-mm-thick was used to smooth the interface between the plugs and the blade. The teeter dampers were replaced with rigid links, and these two channels were flagged as not applicable by setting the measured values in the data file to -99999.99 Nm. The teeter link load cell was pre-tensioned to 40,000 N. During post-processing, the probe channels were set to read -99999.99. In addition to the standard 30-second campaigns, yaw sweeps were done at 7 m/s and 10 m/s for the Sequence S configuration. These 6-minute campaigns were collected while the yaw drive rotated the turbine 360° at a rate of 1°/s. The file names for these campaigns use the letter designation, followed by two digits for wind speed, followed by YSU, followed by 00.

17 WIND ENERGY↗

DOE OSTI2022

UAE6 - Wind Tunnel Tests Data - UAE6 - Sequence T - Raw Data

17 WIND ENERGY↗