models database detail: Topics by Science.gov

Sample records for models database detail

Consolidated Human Activity Database (CHAD) for use in human exposure and health studies and predictive models

EPA Pesticide Factsheets

EPA scientists have compiled detailed data on human behavior from 22 separate exposure and time-use studies into CHAD. The database includes more than 54,000 individual study days of detailed human behavior.
Detailed Uncertainty Analysis of the Ares I A106 Liftoff/Transition Database

NASA Technical Reports Server (NTRS)

Hanke, Jeremy L.

2011-01-01

The Ares I A106 Liftoff/Transition Force and Moment Aerodynamics Database describes the aerodynamics of the Ares I Crew Launch Vehicle (CLV) from the moment of liftoff through the transition from high to low total angles of attack at low subsonic Mach numbers. The database includes uncertainty estimates that were developed using a detailed uncertainty quantification procedure. The Ares I Aerodynamics Panel developed both the database and the uncertainties from wind tunnel test data acquired in the NASA Langley Research Center s 14- by 22-Foot Subsonic Wind Tunnel Test 591 using a 1.75 percent scale model of the Ares I and the tower assembly. The uncertainty modeling contains three primary uncertainty sources: experimental uncertainty, database modeling uncertainty, and database query interpolation uncertainty. The final database and uncertainty model represent a significant improvement in the quality of the aerodynamic predictions for this regime of flight over the estimates previously used by the Ares Project. The maximum possible aerodynamic force pushing the vehicle towards the launch tower assembly in a dispersed case using this database saw a 40 percent reduction from the worst-case scenario in previously released data for Ares I.
Effects of Soil Data and Simulation Unit Resolution on Quantifying Changes of Soil Organic Carbon at Regional Scale with a Biogeochemical Process Model

PubMed Central

Zhang, Liming; Yu, Dongsheng; Shi, Xuezheng; Xu, Shengxiang; Xing, Shihe; Zhao, Yongcong

2014-01-01

Soil organic carbon (SOC) models were often applied to regions with high heterogeneity, but limited spatially differentiated soil information and simulation unit resolution. This study, carried out in the Tai-Lake region of China, defined the uncertainty derived from application of the DeNitrification-DeComposition (DNDC) biogeochemical model in an area with heterogeneous soil properties and different simulation units. Three different resolution soil attribute databases, a polygonal capture of mapping units at 1∶50,000 (P5), a county-based database of 1∶50,000 (C5) and county-based database of 1∶14,000,000 (C14), were used as inputs for regional DNDC simulation. The P5 and C5 databases were combined with the 1∶50,000 digital soil map, which is the most detailed soil database for the Tai-Lake region. The C14 database was combined with 1∶14,000,000 digital soil map, which is a coarse database and is often used for modeling at a national or regional scale in China. The soil polygons of P5 database and county boundaries of C5 and C14 databases were used as basic simulation units. Results project that from 1982 to 2000, total SOC change in the top layer (0–30 cm) of the 2.3 M ha of paddy soil in the Tai-Lake region was +1.48 Tg C, −3.99 Tg C and −15.38 Tg C based on P5, C5 and C14 databases, respectively. With the total SOC change as modeled with P5 inputs as the baseline, which is the advantages of using detailed, polygon-based soil dataset, the relative deviation of C5 and C14 were 368% and 1126%, respectively. The comparison illustrates that DNDC simulation is strongly influenced by choice of fundamental geographic resolution as well as input soil attribute detail. The results also indicate that improving the framework of DNDC is essential in creating accurate models of the soil carbon cycle. PMID:24523922
EPA U.S. NATIONAL MARKAL DATABASE: DATABASE DOCUMENTATION

EPA Science Inventory

This document describes in detail the U.S. Energy System database developed by EPA's Integrated Strategic Assessment Work Group for use with the MARKAL model. The group is part of the Office of Research and Development and is located in the National Risk Management Research Labor...
The structure and dipole moment of globular proteins in solution and crystalline states: use of NMR and X-ray databases for the numerical calculation of dipole moment.

PubMed

Takashima, S

2001-04-05

The large dipole moment of globular proteins has been well known because of the detailed studies using dielectric relaxation and electro-optical methods. The search for the origin of these dipolemoments, however, must be based on the detailed knowledge on protein structure with atomic resolutions. At present, we have two sources of information on the structure of protein molecules: (1) x-ray databases obtained in crystalline state; (2) NMR databases obtained in solution state. While x-ray databases consist of only one model, NMR databases, because of the fluctuation of the protein folding in solution, consist of a number of models, thus enabling the computation of dipole moment repeated for all these models. The aim of this work, using these databases, is the detailed investigation on the interdependence between the structure and dipole moment of protein molecules. The dipole moment of protein molecules has roughly two components: one dipole moment is due to surface charges and the other, core dipole moment, is due to polar groups such as N--H and C==O bonds. The computation of surface charge dipole moment consists of two steps: (A) calculation of the pK shifts of charged groups for electrostatic interactions and (B) calculation of the dipole moment using the pK corrected for electrostatic shifts. The dipole moments of several proteins were computed using both NMR and x-ray databases. The dipole moments of these two sets of calculations are, with a few exceptions, in good agreement with one another and also with measured dipole moments.
The Zebrafish Model Organism Database: new support for human disease models, mutation details, gene expression phenotypes and searching

PubMed Central

Howe, Douglas G.; Bradford, Yvonne M.; Eagle, Anne; Fashena, David; Frazer, Ken; Kalita, Patrick; Mani, Prita; Martin, Ryan; Moxon, Sierra Taylor; Paddock, Holly; Pich, Christian; Ramachandran, Sridhar; Ruzicka, Leyla; Schaper, Kevin; Shao, Xiang; Singer, Amy; Toro, Sabrina; Van Slyke, Ceri; Westerfield, Monte

2017-01-01

The Zebrafish Model Organism Database (ZFIN; http://zfin.org) is the central resource for zebrafish (Danio rerio) genetic, genomic, phenotypic and developmental data. ZFIN curators provide expert manual curation and integration of comprehensive data involving zebrafish genes, mutants, transgenic constructs and lines, phenotypes, genotypes, gene expressions, morpholinos, TALENs, CRISPRs, antibodies, anatomical structures, models of human disease and publications. We integrate curated, directly submitted, and collaboratively generated data, making these available to zebrafish research community. Among the vertebrate model organisms, zebrafish are superbly suited for rapid generation of sequence-targeted mutant lines, characterization of phenotypes including gene expression patterns, and generation of human disease models. The recent rapid adoption of zebrafish as human disease models is making management of these data particularly important to both the research and clinical communities. Here, we describe recent enhancements to ZFIN including use of the zebrafish experimental conditions ontology, ‘Fish’ records in the ZFIN database, support for gene expression phenotypes, models of human disease, mutation details at the DNA, RNA and protein levels, and updates to the ZFIN single box search. PMID:27899582
Quantification of the Uncertainties for the Ares I A106 Ascent Aerodynamic Database

NASA Technical Reports Server (NTRS)

Houlden, Heather P.; Favaregh, Amber L.

2010-01-01

A detailed description of the quantification of uncertainties for the Ares I ascent aero 6-DOF wind tunnel database is presented. The database was constructed from wind tunnel test data and CFD results. The experimental data came from tests conducted in the Boeing Polysonic Wind Tunnel in St. Louis and the Unitary Plan Wind Tunnel at NASA Langley Research Center. The major sources of error for this database were: experimental error (repeatability), database modeling errors, and database interpolation errors.
The methodology of database design in organization management systems

NASA Astrophysics Data System (ADS)

Chudinov, I. L.; Osipova, V. V.; Bobrova, Y. V.

2017-01-01

The paper describes the unified methodology of database design for management information systems. Designing the conceptual information model for the domain area is the most important and labor-intensive stage in database design. Basing on the proposed integrated approach to design, the conceptual information model, the main principles of developing the relation databases are provided and user’s information needs are considered. According to the methodology, the process of designing the conceptual information model includes three basic stages, which are defined in detail. Finally, the article describes the process of performing the results of analyzing user’s information needs and the rationale for use of classifiers.
Data model and relational database design for the New England Water-Use Data System (NEWUDS)

USGS Publications Warehouse

Tessler, Steven

2001-01-01

The New England Water-Use Data System (NEWUDS) is a database for the storage and retrieval of water-use data. NEWUDS can handle data covering many facets of water use, including (1) tracking various types of water-use activities (withdrawals, returns, transfers, distributions, consumptive-use, wastewater collection, and treatment); (2) the description, classification and location of places and organizations involved in water-use activities; (3) details about measured or estimated volumes of water associated with water-use activities; and (4) information about data sources and water resources associated with water use. In NEWUDS, each water transaction occurs unidirectionally between two site objects, and the sites and conveyances form a water network. The core entities in the NEWUDS model are site, conveyance, transaction/rate, location, and owner. Other important entities include water resources (used for withdrawals and returns), data sources, and aliases. Multiple water-exchange estimates can be stored for individual transactions based on different methods or data sources. Storage of user-defined details is accommodated for several of the main entities. Numerous tables containing classification terms facilitate detailed descriptions of data items and can be used for routine or custom data summarization. NEWUDS handles single-user and aggregate-user water-use data, can be used for large or small water-network projects, and is available as a stand-alone Microsoft? Access database structure. Users can customize and extend the database, link it to other databases, or implement the design in other relational database applications.
Detailed Uncertainty Analysis for Ares I Ascent Aerodynamics Wind Tunnel Database

NASA Technical Reports Server (NTRS)

Hemsch, Michael J.; Hanke, Jeremy L.; Walker, Eric L.; Houlden, Heather P.

2008-01-01

A detailed uncertainty analysis for the Ares I ascent aero 6-DOF wind tunnel database is described. While the database itself is determined using only the test results for the latest configuration, the data used for the uncertainty analysis comes from four tests on two different configurations at the Boeing Polysonic Wind Tunnel in St. Louis and the Unitary Plan Wind Tunnel at NASA Langley Research Center. Four major error sources are considered: (1) systematic errors from the balance calibration curve fits and model + balance installation, (2) run-to-run repeatability, (3) boundary-layer transition fixing, and (4) tunnel-to-tunnel reproducibility.
Quantification of the Uncertainties for the Space Launch System Liftoff/Transition and Ascent Databases

NASA Technical Reports Server (NTRS)

Favaregh, Amber L.; Houlden, Heather P.; Pinier, Jeremy T.

2016-01-01

A detailed description of the uncertainty quantification process for the Space Launch System Block 1 vehicle configuration liftoff/transition and ascent 6-Degree-of-Freedom (DOF) aerodynamic databases is presented. These databases were constructed from wind tunnel test data acquired in the NASA Langley Research Center 14- by 22-Foot Subsonic Wind Tunnel and the Boeing Polysonic Wind Tunnel in St. Louis, MO, respectively. The major sources of error for these databases were experimental error and database modeling errors.
DAMIT: a database of asteroid models

NASA Astrophysics Data System (ADS)

Durech, J.; Sidorin, V.; Kaasalainen, M.

2010-04-01

Context. Apart from a few targets that were directly imaged by spacecraft, remote sensing techniques are the main source of information about the basic physical properties of asteroids, such as the size, the spin state, or the spectral type. The most widely used observing technique - time-resolved photometry - provides us with data that can be used for deriving asteroid shapes and spin states. In the past decade, inversion of asteroid lightcurves has led to more than a hundred asteroid models. In the next decade, when data from all-sky surveys are available, the number of asteroid models will increase. Combining photometry with, e.g., adaptive optics data produces more detailed models. Aims: We created the Database of Asteroid Models from Inversion Techniques (DAMIT) with the aim of providing the astronomical community access to reliable and up-to-date physical models of asteroids - i.e., their shapes, rotation periods, and spin axis directions. Models from DAMIT can be used for further detailed studies of individual objects, as well as for statistical studies of the whole set. Methods: Most DAMIT models were derived from photometric data by the lightcurve inversion method. Some of them have been further refined or scaled using adaptive optics images, infrared observations, or occultation data. A substantial number of the models were derived also using sparse photometric data from astrometric databases. Results: At present, the database contains models of more than one hundred asteroids. For each asteroid, DAMIT provides the polyhedral shape model, the sidereal rotation period, the spin axis direction, and the photometric data used for the inversion. The database is updated when new models are available or when already published models are updated or refined. We have also released the C source code for the lightcurve inversion and for the direct problem (updates and extensions will follow).
SModelS v1.1 user manual: Improving simplified model constraints with efficiency maps

NASA Astrophysics Data System (ADS)

Ambrogi, Federico; Kraml, Sabine; Kulkarni, Suchita; Laa, Ursula; Lessa, Andre; Magerl, Veronika; Sonneveld, Jory; Traub, Michael; Waltenberger, Wolfgang

2018-06-01

SModelS is an automatized tool for the interpretation of simplified model results from the LHC. It allows to decompose models of new physics obeying a Z2 symmetry into simplified model components, and to compare these against a large database of experimental results. The first release of SModelS, v1.0, used only cross section upper limit maps provided by the experimental collaborations. In this new release, v1.1, we extend the functionality of SModelS to efficiency maps. This increases the constraining power of the software, as efficiency maps allow to combine contributions to the same signal region from different simplified models. Other new features of version 1.1 include likelihood and χ2 calculations, extended information on the topology coverage, an extended database of experimental results as well as major speed upgrades for both the code and the database. We describe in detail the concepts and procedures used in SModelS v1.1, explaining in particular how upper limits and efficiency map results are dealt with in parallel. Detailed instructions for code usage are also provided.
Leaf respiration ( GlobResp) - global trait database supports Earth System Models

DOE PAGES

Wullschleger, Stan D.; Warren, Jeffrey; Thornton, Peter E.

2015-03-20

Here we detail how Atkin and his colleagues compiled a global database (GlobResp) that details rates of leaf dark respiration and associated traits from sites that span Arctic tundra to tropical forests. This compilation builds upon earlier research (Reich et al., 1998; Wright et al., 2006) and was supplemented by recent field campaigns and unpublished data.In keeping with other trait databases, GlobResp provides insights on how physiological traits, especially rates of dark respiration, vary as a function of environment and how that variation can be used to inform terrestrial biosphere models and land surface components of Earth System Models. Althoughmore » an important component of plant and ecosystem carbon (C) budgets (Wythers et al., 2013), respiration has only limited representation in models. Seen through the eyes of a plant scientist, Atkin et al. (2015) give readers a unique perspective on the climatic controls on respiration, thermal acclimation and evolutionary adaptation of dark respiration, and insights into the covariation of respiration with other leaf traits. We find there is ample evidence that once large databases are compiled, like GlobResp, they can reveal new knowledge of plant function and provide a valuable resource for hypothesis testing and model development.« less
Integration of Information Retrieval and Database Management Systems.

ERIC Educational Resources Information Center

Deogun, Jitender S.; Raghavan, Vijay V.

1988-01-01

Discusses the motivation for integrating information retrieval and database management systems, and proposes a probabilistic retrieval model in which records in a file may be composed of attributes (formatted data items) and descriptors (content indicators). The details and resolutions of difficulties involved in integrating such systems are…
Advanced transportation system studies. Alternate propulsion subsystem concepts: Propulsion database

NASA Technical Reports Server (NTRS)

Levack, Daniel

1993-01-01

The Advanced Transportation System Studies alternate propulsion subsystem concepts propulsion database interim report is presented. The objective of the database development task is to produce a propulsion database which is easy to use and modify while also being comprehensive in the level of detail available. The database is to be available on the Macintosh computer system. The task is to extend across all three years of the contract. Consequently, a significant fraction of the effort in this first year of the task was devoted to the development of the database structure to ensure a robust base for the following years' efforts. Nonetheless, significant point design propulsion system descriptions and parametric models were also produced. Each of the two propulsion databases, parametric propulsion database and propulsion system database, are described. The descriptions include a user's guide to each code, write-ups for models used, and sample output. The parametric database has models for LOX/H2 and LOX/RP liquid engines, solid rocket boosters using three different propellants, a hybrid rocket booster, and a NERVA derived nuclear thermal rocket engine.
Distributed Database Control and Allocation. Volume 3. Distributed Database System Designer’s Handbook.

DTIC Science & Technology

1983-10-01

Multiversion Data 2-18 2.7.1 Multiversion Timestamping 2-20 2.T.2 Multiversion Looking 2-20 2.8 Combining the Techniques 2-22 3. Database Recovery Algorithms...See rTHEM79, GIFF79] for details. 2.7 Multiversion Data Let us return to a database system model where each logical data item is stored at one DM...In a multiversion database each Write wifxl, produces a new copy (or version) of x, denoted xi. Thus, the value of z is a set of ver- sions. For each
Flow unsteadiness effects on boundary layers

NASA Technical Reports Server (NTRS)

Murthy, Sreedhara V.

1989-01-01

The development of boundary layers at high subsonic speeds in the presence of either mass flux fluctuations or acoustic disturbances (the two most important parameters in the unsteadiness environment affecting the aerodynamics of a flight vehicle) was investigated. A high quality database for generating detailed information concerning free-stream flow unsteadiness effects on boundary layer growth and transition in high subsonic and transonic speeds is described. The database will be generated with a two-pronged approach: (1) from a detailed review of existing literature on research and wind tunnel calibration database, and (2) from detailed tests in the Boundary Layer Apparatus for Subsonic and Transonic flow Affected by Noise Environment (BLASTANE). Special instrumentation, including hot wire anemometry, the buried wire gage technique, and laser velocimetry were used to obtain skin friction and turbulent shear stress data along the entire boundary layer for various free stream noise levels, turbulence content, and pressure gradients. This database will be useful for improving the correction methodology of applying wind tunnel test data to flight predictions and will be helpful for making improvements in turbulence modeling laws.
Modeling, Measurements, and Fundamental Database Development for Nonequilibrium Hypersonic Aerothermodynamics

NASA Technical Reports Server (NTRS)

Bose, Deepak

2012-01-01

The design of entry vehicles requires predictions of aerothermal environment during the hypersonic phase of their flight trajectories. These predictions are made using computational fluid dynamics (CFD) codes that often rely on physics and chemistry models of nonequilibrium processes. The primary processes of interest are gas phase chemistry, internal energy relaxation, electronic excitation, nonequilibrium emission and absorption of radiation, and gas-surface interaction leading to surface recession and catalytic recombination. NASAs Hypersonics Project is advancing the state-of-the-art in modeling of nonequilibrium phenomena by making detailed spectroscopic measurements in shock tube and arcjets, using ab-initio quantum mechanical techniques develop fundamental chemistry and spectroscopic databases, making fundamental measurements of finite-rate gas surface interactions, implementing of detailed mechanisms in the state-of-the-art CFD codes, The development of new models is based on validation with relevant experiments. We will present the latest developments and a roadmap for the technical areas mentioned above
Data model and relational database design for the New Jersey Water-Transfer Data System (NJWaTr)

USGS Publications Warehouse

Tessler, Steven

2003-01-01

The New Jersey Water-Transfer Data System (NJWaTr) is a database design for the storage and retrieval of water-use data. NJWaTr can manage data encompassing many facets of water use, including (1) the tracking of various types of water-use activities (withdrawals, returns, transfers, distributions, consumptive-use, wastewater collection, and treatment); (2) the storage of descriptions, classifications and locations of places and organizations involved in water-use activities; (3) the storage of details about measured or estimated volumes of water associated with water-use activities; and (4) the storage of information about data sources and water resources associated with water use. In NJWaTr, each water transfer occurs unidirectionally between two site objects, and the sites and conveyances form a water network. The core entities in the NJWaTr model are site, conveyance, transfer/volume, location, and owner. Other important entities include water resource (used for withdrawals and returns), data source, permit, and alias. Multiple water-exchange estimates based on different methods or data sources can be stored for individual transfers. Storage of user-defined details is accommodated for several of the main entities. Many tables contain classification terms to facilitate the detailed description of data items and can be used for routine or custom data summarization. NJWaTr accommodates single-user and aggregate-user water-use data, can be used for large or small water-network projects, and is available as a stand-alone Microsoft? Access database. Data stored in the NJWaTr structure can be retrieved in user-defined combinations to serve visualization and analytical applications. Users can customize and extend the database, link it to other databases, or implement the design in other relational database applications.

Transport and Environment Database System (TRENDS): Maritime air pollutant emission modelling

NASA Astrophysics Data System (ADS)

Georgakaki, Aliki; Coffey, Robert A.; Lock, Graham; Sorenson, Spencer C.

This paper reports the development of the maritime module within the framework of the Transport and Environment Database System (TRENDS) project. A detailed database has been constructed for the calculation of energy consumption and air pollutant emissions. Based on an in-house database of commercial vessels kept at the Technical University of Denmark, relationships between the fuel consumption and size of different vessels have been developed, taking into account the fleet's age and service speed. The technical assumptions and factors incorporated in the database are presented, including changes from findings reported in Methodologies for Estimating air pollutant Emissions from Transport (MEET). The database operates on statistical data provided by Eurostat, which describe vessel and freight movements from and towards EU 15 major ports. Data are at port to Maritime Coastal Area (MCA) level, so a bottom-up approach is used. A port to MCA distance database has also been constructed for the purpose of the study. This was the first attempt to use Eurostat maritime statistics for emission modelling; and the problems encountered, since the statistical data collection was not undertaken with a view to this purpose, are mentioned. Examples of the results obtained by the database are presented. These include detailed air pollutant emission calculations for bulk carriers entering the port of Helsinki, as an example of the database operation, and aggregate results for different types of movements for France. Overall estimates of SO x and NO x emission caused by shipping traffic between the EU 15 countries are in the area of 1 and 1.5 million tonnes, respectively.
NALDB: nucleic acid ligand database for small molecules targeting nucleic acid

PubMed Central

Kumar Mishra, Subodh; Kumar, Amit

2016-01-01

Nucleic acid ligand database (NALDB) is a unique database that provides detailed information about the experimental data of small molecules that were reported to target several types of nucleic acid structures. NALDB is the first ligand database that contains ligand information for all type of nucleic acid. NALDB contains more than 3500 ligand entries with detailed pharmacokinetic and pharmacodynamic information such as target name, target sequence, ligand 2D/3D structure, SMILES, molecular formula, molecular weight, net-formal charge, AlogP, number of rings, number of hydrogen bond donor and acceptor, potential energy along with their Ki, Kd, IC50 values. All these details at single platform would be helpful for the development and betterment of novel ligands targeting nucleic acids that could serve as a potential target in different diseases including cancers and neurological disorders. With maximum 255 conformers for each ligand entry, our database is a multi-conformer database and can facilitate the virtual screening process. NALDB provides powerful web-based search tools that make database searching efficient and simplified using option for text as well as for structure query. NALDB also provides multi-dimensional advanced search tool which can screen the database molecules on the basis of molecular properties of ligand provided by database users. A 3D structure visualization tool has also been included for 3D structure representation of ligands. NALDB offers an inclusive pharmacological information and the structurally flexible set of small molecules with their three-dimensional conformers that can accelerate the virtual screening and other modeling processes and eventually complement the nucleic acid-based drug discovery research. NALDB can be routinely updated and freely available on bsbe.iiti.ac.in/bsbe/naldb/HOME.php. Database URL: http://bsbe.iiti.ac.in/bsbe/naldb/HOME.php PMID:26896846
IMGMD: A platform for the integration and standardisation of In silico Microbial Genome-scale Metabolic Models.

PubMed

Ye, Chao; Xu, Nan; Dong, Chuan; Ye, Yuannong; Zou, Xuan; Chen, Xiulai; Guo, Fengbiao; Liu, Liming

2017-04-07

Genome-scale metabolic models (GSMMs) constitute a platform that combines genome sequences and detailed biochemical information to quantify microbial physiology at the system level. To improve the unity, integrity, correctness, and format of data in published GSMMs, a consensus IMGMD database was built in the LAMP (Linux + Apache + MySQL + PHP) system by integrating and standardizing 328 GSMMs constructed for 139 microorganisms. The IMGMD database can help microbial researchers download manually curated GSMMs, rapidly reconstruct standard GSMMs, design pathways, and identify metabolic targets for strategies on strain improvement. Moreover, the IMGMD database facilitates the integration of wet-lab and in silico data to gain an additional insight into microbial physiology. The IMGMD database is freely available, without any registration requirements, at http://imgmd.jiangnan.edu.cn/database.
Toward an open-access global database for mapping, control, and surveillance of neglected tropical diseases.

PubMed

Hürlimann, Eveline; Schur, Nadine; Boutsika, Konstantina; Stensgaard, Anna-Sofie; Laserna de Himpsl, Maiti; Ziegelbauer, Kathrin; Laizer, Nassor; Camenzind, Lukas; Di Pasquale, Aurelio; Ekpo, Uwem F; Simoonga, Christopher; Mushinge, Gabriel; Saarnak, Christopher F L; Utzinger, Jürg; Kristensen, Thomas K; Vounatsou, Penelope

2011-12-01

After many years of general neglect, interest has grown and efforts came under way for the mapping, control, surveillance, and eventual elimination of neglected tropical diseases (NTDs). Disease risk estimates are a key feature to target control interventions, and serve as a benchmark for monitoring and evaluation. What is currently missing is a georeferenced global database for NTDs providing open-access to the available survey data that is constantly updated and can be utilized by researchers and disease control managers to support other relevant stakeholders. We describe the steps taken toward the development of such a database that can be employed for spatial disease risk modeling and control of NTDs. With an emphasis on schistosomiasis in Africa, we systematically searched the literature (peer-reviewed journals and 'grey literature'), contacted Ministries of Health and research institutions in schistosomiasis-endemic countries for location-specific prevalence data and survey details (e.g., study population, year of survey and diagnostic techniques). The data were extracted, georeferenced, and stored in a MySQL database with a web interface allowing free database access and data management. At the beginning of 2011, our database contained more than 12,000 georeferenced schistosomiasis survey locations from 35 African countries available under http://www.gntd.org. Currently, the database is expanded to a global repository, including a host of other NTDs, e.g. soil-transmitted helminthiasis and leishmaniasis. An open-access, spatially explicit NTD database offers unique opportunities for disease risk modeling, targeting control interventions, disease monitoring, and surveillance. Moreover, it allows for detailed geostatistical analyses of disease distribution in space and time. With an initial focus on schistosomiasis in Africa, we demonstrate the proof-of-concept that the establishment and running of a global NTD database is feasible and should be expanded without delay.
A cloud and radiation model-based algorithm for rainfall retrieval from SSM/I multispectral microwave measurements

NASA Technical Reports Server (NTRS)

Xiang, Xuwu; Smith, Eric A.; Tripoli, Gregory J.

1992-01-01

A hybrid statistical-physical retrieval scheme is explored which combines a statistical approach with an approach based on the development of cloud-radiation models designed to simulate precipitating atmospheres. The algorithm employs the detailed microphysical information from a cloud model as input to a radiative transfer model which generates a cloud-radiation model database. Statistical procedures are then invoked to objectively generate an initial guess composite profile data set from the database. The retrieval algorithm has been tested for a tropical typhoon case using Special Sensor Microwave/Imager (SSM/I) data and has shown satisfactory results.
User's Manual for RESRAD-OFFSITE Version 2.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Yu, C.; Gnanapragasam, E.; Biwer, B. M.

2007-09-05

The RESRAD-OFFSITE code is an extension of the RESRAD (onsite) code, which has been widely used for calculating doses and risks from exposure to radioactively contaminated soils. The development of RESRAD-OFFSITE started more than 10 years ago, but new models and methodologies have been developed, tested, and incorporated since then. Some of the new models have been benchmarked against other independently developed (international) models. The databases used have also expanded to include all the radionuclides (more than 830) contained in the International Commission on Radiological Protection (ICRP) 38 database. This manual provides detailed information on the design and application ofmore » the RESRAD-OFFSITE code. It describes in detail the new models used in the code, such as the three-dimensional dispersion groundwater flow and radionuclide transport model, the Gaussian plume model for atmospheric dispersion, and the deposition model used to estimate the accumulation of radionuclides in offsite locations and in foods. Potential exposure pathways and exposure scenarios that can be modeled by the RESRAD-OFFSITE code are also discussed. A user's guide is included in Appendix A of this manual. The default parameter values and parameter distributions are presented in Appendix B, along with a discussion on the statistical distributions for probabilistic analysis. A detailed discussion on how to reduce run time, especially when conducting probabilistic (uncertainty) analysis, is presented in Appendix C of this manual.« less
A virtual reality browser for Space Station models

NASA Technical Reports Server (NTRS)

Goldsby, Michael; Pandya, Abhilash; Aldridge, Ann; Maida, James

1993-01-01

The Graphics Analysis Facility at NASA/JSC has created a visualization and learning tool by merging its database of detailed geometric models with a virtual reality system. The system allows an interactive walk-through of models of the Space Station and other structures, providing detailed realistic stereo images. The user can activate audio messages describing the function and connectivity of selected components within his field of view. This paper presents the issues and trade-offs involved in the implementation of the VR system and discusses its suitability for its intended purposes.
Canto: an online tool for community literature curation.

PubMed

Rutherford, Kim M; Harris, Midori A; Lock, Antonia; Oliver, Stephen G; Wood, Valerie

2014-06-15

Detailed curation of published molecular data is essential for any model organism database. Community curation enables researchers to contribute data from their papers directly to databases, supplementing the activity of professional curators and improving coverage of a growing body of literature. We have developed Canto, a web-based tool that provides an intuitive curation interface for both curators and researchers, to support community curation in the fission yeast database, PomBase. Canto supports curation using OBO ontologies, and can be easily configured for use with any species. Canto code and documentation are available under an Open Source license from http://curation.pombase.org/. Canto is a component of the Generic Model Organism Database (GMOD) project (http://www.gmod.org/). © The Author 2014. Published by Oxford University Press.
Developing an Approach to Prioritize River Restoration using Data Extracted from Flood Risk Information System Databases.

NASA Astrophysics Data System (ADS)

Vimal, S.; Tarboton, D. G.; Band, L. E.; Duncan, J. M.; Lovette, J. P.; Corzo, G.; Miles, B.

2015-12-01

Prioritizing river restoration requires information on river geometry. In many states in the US detailed river geometry has been collected for floodplain mapping and is available in Flood Risk Information Systems (FRIS). In particular, North Carolina has, for its 100 Counties, developed a database of numerous HEC-RAS models which are available through its Flood Risk Information System (FRIS). These models that include over 260 variables were developed and updated by numerous contractors. They contain detailed surveyed or LiDAR derived cross-sections and modeled flood extents for different extreme event return periods. In this work, over 4700 HEC-RAS models' data was integrated and upscaled to utilize detailed cross-section information and 100-year modelled flood extent information to enable river restoration prioritization for the entire state of North Carolina. We developed procedures to extract geomorphic properties such as entrenchment ratio, incision ratio, etc. from these models. Entrenchment ratio quantifies the vertical containment of rivers and thereby their vulnerability to flooding and incision ratio quantifies the depth per unit width. A map of entrenchment ratio for the whole state was derived by linking these model results to a geodatabase. A ranking of highly entrenched counties enabling prioritization for flood allowance and mitigation was obtained. The results were shared through HydroShare and web maps developed for their visualization using Google Maps Engine API.
BIOSPIDA: A Relational Database Translator for NCBI.

PubMed

Hagen, Matthew S; Lee, Eva K

2010-11-13

As the volume and availability of biological databases continue widespread growth, it has become increasingly difficult for research scientists to identify all relevant information for biological entities of interest. Details of nucleotide sequences, gene expression, molecular interactions, and three-dimensional structures are maintained across many different databases. To retrieve all necessary information requires an integrated system that can query multiple databases with minimized overhead. This paper introduces a universal parser and relational schema translator that can be utilized for all NCBI databases in Abstract Syntax Notation (ASN.1). The data models for OMIM, Entrez-Gene, Pubmed, MMDB and GenBank have been successfully converted into relational databases and all are easily linkable helping to answer complex biological questions. These tools facilitate research scientists to locally integrate databases from NCBI without significant workload or development time.
Establishment of Low Energy Building materials and Equipment Database Based on Property Information

NASA Astrophysics Data System (ADS)

Kim, Yumin; Shin, Hyery; eon Lee, Seung

2018-03-01

The purpose of this study is to provide reliable service of materials information portal through the establishment of public big data by collecting and integrating scattered low energy building materials and equipment data. There were few cases of low energy building materials database in Korea have provided material properties as factors influencing material pricing. The framework of the database was defined referred with Korea On-line E-procurement system. More than 45,000 data were gathered by the specification of entities and with the gathered data, price prediction models for chillers were suggested. To improve the usability of the prediction model, detailed properties should be analysed for each item.
NALDB: nucleic acid ligand database for small molecules targeting nucleic acid.

PubMed

Kumar Mishra, Subodh; Kumar, Amit

2016-01-01

Nucleic acid ligand database (NALDB) is a unique database that provides detailed information about the experimental data of small molecules that were reported to target several types of nucleic acid structures. NALDB is the first ligand database that contains ligand information for all type of nucleic acid. NALDB contains more than 3500 ligand entries with detailed pharmacokinetic and pharmacodynamic information such as target name, target sequence, ligand 2D/3D structure, SMILES, molecular formula, molecular weight, net-formal charge, AlogP, number of rings, number of hydrogen bond donor and acceptor, potential energy along with their Ki, Kd, IC50 values. All these details at single platform would be helpful for the development and betterment of novel ligands targeting nucleic acids that could serve as a potential target in different diseases including cancers and neurological disorders. With maximum 255 conformers for each ligand entry, our database is a multi-conformer database and can facilitate the virtual screening process. NALDB provides powerful web-based search tools that make database searching efficient and simplified using option for text as well as for structure query. NALDB also provides multi-dimensional advanced search tool which can screen the database molecules on the basis of molecular properties of ligand provided by database users. A 3D structure visualization tool has also been included for 3D structure representation of ligands. NALDB offers an inclusive pharmacological information and the structurally flexible set of small molecules with their three-dimensional conformers that can accelerate the virtual screening and other modeling processes and eventually complement the nucleic acid-based drug discovery research. NALDB can be routinely updated and freely available on bsbe.iiti.ac.in/bsbe/naldb/HOME.php. Database URL: http://bsbe.iiti.ac.in/bsbe/naldb/HOME.php. © The Author(s) 2016. Published by Oxford University Press.
European Geophysical Society (23rd) General Assembly, Annales Geophysicae. Part 2. Hydrology, Oceans & Atmosphere, Supplement 2 to Volume 16 Held in Nice, France on 20-24 April 1998

DTIC Science & Technology

1998-01-01

sand and gravel outcrops - led to a database of hydraulic conductivities, porosities and kinetic parameters for each lithologjcal fades present in...sedimentological methods. The resulting 2D high-resolution data sets represent a veiy detailed database of excellent quality. On the basis of one example...from an outcrop in southwest Germany the process of building up the database is explained and the results of modelling of transport kinetics in such
Cost model relationships between textile manufacturing processes and design details for transport fuselage elements

NASA Technical Reports Server (NTRS)

Metschan, Stephen L.; Wilden, Kurtis S.; Sharpless, Garrett C.; Andelman, Rich M.

1993-01-01

Textile manufacturing processes offer potential cost and weight advantages over traditional composite materials and processes for transport fuselage elements. In the current study, design cost modeling relationships between textile processes and element design details were developed. Such relationships are expected to help future aircraft designers to make timely decisions on the effect of design details and overall configurations on textile fabrication costs. The fundamental advantage of a design cost model is to insure that the element design is cost effective for the intended process. Trade studies on the effects of processing parameters also help to optimize the manufacturing steps for a particular structural element. Two methods of analyzing design detail/process cost relationships developed for the design cost model were pursued in the current study. The first makes use of existing databases and alternative cost modeling methods (e.g. detailed estimating). The second compares design cost model predictions with data collected during the fabrication of seven foot circumferential frames for ATCAS crown test panels. The process used in this case involves 2D dry braiding and resin transfer molding of curved 'J' cross section frame members having design details characteristic of the baseline ATCAS crown design.
BIOSPIDA: A Relational Database Translator for NCBI

PubMed Central

Hagen, Matthew S.; Lee, Eva K.

2010-01-01

As the volume and availability of biological databases continue widespread growth, it has become increasingly difficult for research scientists to identify all relevant information for biological entities of interest. Details of nucleotide sequences, gene expression, molecular interactions, and three-dimensional structures are maintained across many different databases. To retrieve all necessary information requires an integrated system that can query multiple databases with minimized overhead. This paper introduces a universal parser and relational schema translator that can be utilized for all NCBI databases in Abstract Syntax Notation (ASN.1). The data models for OMIM, Entrez-Gene, Pubmed, MMDB and GenBank have been successfully converted into relational databases and all are easily linkable helping to answer complex biological questions. These tools facilitate research scientists to locally integrate databases from NCBI without significant workload or development time. PMID:21347013
An online database for informing ecological network models: http://kelpforest.ucsc.edu.

PubMed

Beas-Luna, Rodrigo; Novak, Mark; Carr, Mark H; Tinker, Martin T; Black, August; Caselle, Jennifer E; Hoban, Michael; Malone, Dan; Iles, Alison

2014-01-01

Ecological network models and analyses are recognized as valuable tools for understanding the dynamics and resiliency of ecosystems, and for informing ecosystem-based approaches to management. However, few databases exist that can provide the life history, demographic and species interaction information necessary to parameterize ecological network models. Faced with the difficulty of synthesizing the information required to construct models for kelp forest ecosystems along the West Coast of North America, we developed an online database (http://kelpforest.ucsc.edu/) to facilitate the collation and dissemination of such information. Many of the database's attributes are novel yet the structure is applicable and adaptable to other ecosystem modeling efforts. Information for each taxonomic unit includes stage-specific life history, demography, and body-size allometries. Species interactions include trophic, competitive, facilitative, and parasitic forms. Each data entry is temporally and spatially explicit. The online data entry interface allows researchers anywhere to contribute and access information. Quality control is facilitated by attributing each entry to unique contributor identities and source citations. The database has proven useful as an archive of species and ecosystem-specific information in the development of several ecological network models, for informing management actions, and for education purposes (e.g., undergraduate and graduate training). To facilitate adaptation of the database by other researches for other ecosystems, the code and technical details on how to customize this database and apply it to other ecosystems are freely available and located at the following link (https://github.com/kelpforest-cameo/databaseui).
An Online Database for Informing Ecological Network Models: http://kelpforest.ucsc.edu

PubMed Central

Beas-Luna, Rodrigo; Novak, Mark; Carr, Mark H.; Tinker, Martin T.; Black, August; Caselle, Jennifer E.; Hoban, Michael; Malone, Dan; Iles, Alison

2014-01-01

Ecological network models and analyses are recognized as valuable tools for understanding the dynamics and resiliency of ecosystems, and for informing ecosystem-based approaches to management. However, few databases exist that can provide the life history, demographic and species interaction information necessary to parameterize ecological network models. Faced with the difficulty of synthesizing the information required to construct models for kelp forest ecosystems along the West Coast of North America, we developed an online database (http://kelpforest.ucsc.edu/) to facilitate the collation and dissemination of such information. Many of the database's attributes are novel yet the structure is applicable and adaptable to other ecosystem modeling efforts. Information for each taxonomic unit includes stage-specific life history, demography, and body-size allometries. Species interactions include trophic, competitive, facilitative, and parasitic forms. Each data entry is temporally and spatially explicit. The online data entry interface allows researchers anywhere to contribute and access information. Quality control is facilitated by attributing each entry to unique contributor identities and source citations. The database has proven useful as an archive of species and ecosystem-specific information in the development of several ecological network models, for informing management actions, and for education purposes (e.g., undergraduate and graduate training). To facilitate adaptation of the database by other researches for other ecosystems, the code and technical details on how to customize this database and apply it to other ecosystems are freely available and located at the following link (https://github.com/kelpforest-cameo/databaseui). PMID:25343723
An online database for informing ecological network models: http://kelpforest.ucsc.edu

USGS Publications Warehouse

Beas-Luna, Rodrigo; Tinker, M. Tim; Novak, Mark; Carr, Mark H.; Black, August; Caselle, Jennifer E.; Hoban, Michael; Malone, Dan; Iles, Alison C.

2014-01-01

Ecological network models and analyses are recognized as valuable tools for understanding the dynamics and resiliency of ecosystems, and for informing ecosystem-based approaches to management. However, few databases exist that can provide the life history, demographic and species interaction information necessary to parameterize ecological network models. Faced with the difficulty of synthesizing the information required to construct models for kelp forest ecosystems along the West Coast of North America, we developed an online database (http://kelpforest.ucsc.edu/) to facilitate the collation and dissemination of such information. Many of the database's attributes are novel yet the structure is applicable and adaptable to other ecosystem modeling efforts. Information for each taxonomic unit includes stage-specific life history, demography, and body-size allometries. Species interactions include trophic, competitive, facilitative, and parasitic forms. Each data entry is temporally and spatially explicit. The online data entry interface allows researchers anywhere to contribute and access information. Quality control is facilitated by attributing each entry to unique contributor identities and source citations. The database has proven useful as an archive of species and ecosystem-specific information in the development of several ecological network models, for informing management actions, and for education purposes (e.g., undergraduate and graduate training). To facilitate adaptation of the database by other researches for other ecosystems, the code and technical details on how to customize this database and apply it to other ecosystems are freely available and located at the following link (https://github.com/kelpforest-cameo/databaseui).
View generated database

NASA Technical Reports Server (NTRS)

Downward, James G.

1992-01-01

This document represents the final report for the View Generated Database (VGD) project, NAS7-1066. It documents the work done on the project up to the point at which all project work was terminated due to lack of project funds. The VGD was to provide the capability to accurately represent any real-world object or scene as a computer model. Such models include both an accurate spatial/geometric representation of surfaces of the object or scene, as well as any surface detail present on the object. Applications of such models are numerous, including acquisition and maintenance of work models for tele-autonomous systems, generation of accurate 3-D geometric/photometric models for various 3-D vision systems, and graphical models for realistic rendering of 3-D scenes via computer graphics.
Origin and transport of high energy particles in the galaxy

NASA Technical Reports Server (NTRS)

Wefel, John P.

1987-01-01

The origin, confinement, and transport of cosmic ray nuclei in the galaxy was studied. The work involves interpretations of the existing cosmic ray physics database derived from both balloon and satellite measurements, combined with an effort directed towards defining the next generation of instruments for the study of cosmic radiation. The shape and the energy dependence of the cosmic ray pathlength distribution in the galaxy was studied, demonstrating that the leaky box model is not a good representation of the detailed particle transport over the energy range covered by the database. Alternative confinement methods were investigated, analyzing the confinement lifetime in these models based upon the available data for radioactive secondary isotopes. The source abundances of several isotopes were studied using compiled nuclear physics data and the detailed transport calculations. The effects of distributed particle acceleration on the secondary to primary ratios were investigated.

Second NASA Technical Interchange Meeting (TIM): Advanced Technology Lifecycle Analysis System (ATLAS) Technology Tool Box (TTB)

NASA Technical Reports Server (NTRS)

ONeil, D. A.; Mankins, J. C.; Christensen, C. B.; Gresham, E. C.

2005-01-01

The Advanced Technology Lifecycle Analysis System (ATLAS), a spreadsheet analysis tool suite, applies parametric equations for sizing and lifecycle cost estimation. Performance, operation, and programmatic data used by the equations come from a Technology Tool Box (TTB) database. In this second TTB Technical Interchange Meeting (TIM), technologists, system model developers, and architecture analysts discussed methods for modeling technology decisions in spreadsheet models, identified specific technology parameters, and defined detailed development requirements. This Conference Publication captures the consensus of the discussions and provides narrative explanations of the tool suite, the database, and applications of ATLAS within NASA s changing environment.
A data model and database for high-resolution pathology analytical image informatics.

PubMed

Wang, Fusheng; Kong, Jun; Cooper, Lee; Pan, Tony; Kurc, Tahsin; Chen, Wenjin; Sharma, Ashish; Niedermayr, Cristobal; Oh, Tae W; Brat, Daniel; Farris, Alton B; Foran, David J; Saltz, Joel

2011-01-01

The systematic analysis of imaged pathology specimens often results in a vast amount of morphological information at both the cellular and sub-cellular scales. While microscopy scanners and computerized analysis are capable of capturing and analyzing data rapidly, microscopy image data remain underutilized in research and clinical settings. One major obstacle which tends to reduce wider adoption of these new technologies throughout the clinical and scientific communities is the challenge of managing, querying, and integrating the vast amounts of data resulting from the analysis of large digital pathology datasets. This paper presents a data model, which addresses these challenges, and demonstrates its implementation in a relational database system. This paper describes a data model, referred to as Pathology Analytic Imaging Standards (PAIS), and a database implementation, which are designed to support the data management and query requirements of detailed characterization of micro-anatomic morphology through many interrelated analysis pipelines on whole-slide images and tissue microarrays (TMAs). (1) Development of a data model capable of efficiently representing and storing virtual slide related image, annotation, markup, and feature information. (2) Development of a database, based on the data model, capable of supporting queries for data retrieval based on analysis and image metadata, queries for comparison of results from different analyses, and spatial queries on segmented regions, features, and classified objects. The work described in this paper is motivated by the challenges associated with characterization of micro-scale features for comparative and correlative analyses involving whole-slides tissue images and TMAs. Technologies for digitizing tissues have advanced significantly in the past decade. Slide scanners are capable of producing high-magnification, high-resolution images from whole slides and TMAs within several minutes. Hence, it is becoming increasingly feasible for basic, clinical, and translational research studies to produce thousands of whole-slide images. Systematic analysis of these large datasets requires efficient data management support for representing and indexing results from hundreds of interrelated analyses generating very large volumes of quantifications such as shape and texture and of classifications of the quantified features. We have designed a data model and a database to address the data management requirements of detailed characterization of micro-anatomic morphology through many interrelated analysis pipelines. The data model represents virtual slide related image, annotation, markup and feature information. The database supports a wide range of metadata and spatial queries on images, annotations, markups, and features. We currently have three databases running on a Dell PowerEdge T410 server with CentOS 5.5 Linux operating system. The database server is IBM DB2 Enterprise Edition 9.7.2. The set of databases consists of 1) a TMA database containing image analysis results from 4740 cases of breast cancer, with 641 MB storage size; 2) an algorithm validation database, which stores markups and annotations from two segmentation algorithms and two parameter sets on 18 selected slides, with 66 GB storage size; and 3) an in silico brain tumor study database comprising results from 307 TCGA slides, with 365 GB storage size. The latter two databases also contain human-generated annotations and markups for regions and nuclei. Modeling and managing pathology image analysis results in a database provide immediate benefits on the value and usability of data in a research study. The database provides powerful query capabilities, which are otherwise difficult or cumbersome to support by other approaches such as programming languages. Standardized, semantic annotated data representation and interfaces also make it possible to more efficiently share image data and analysis results.
Toward an Open-Access Global Database for Mapping, Control, and Surveillance of Neglected Tropical Diseases

PubMed Central

Hürlimann, Eveline; Schur, Nadine; Boutsika, Konstantina; Stensgaard, Anna-Sofie; Laserna de Himpsl, Maiti; Ziegelbauer, Kathrin; Laizer, Nassor; Camenzind, Lukas; Di Pasquale, Aurelio; Ekpo, Uwem F.; Simoonga, Christopher; Mushinge, Gabriel; Saarnak, Christopher F. L.; Utzinger, Jürg; Kristensen, Thomas K.; Vounatsou, Penelope

2011-01-01

Background After many years of general neglect, interest has grown and efforts came under way for the mapping, control, surveillance, and eventual elimination of neglected tropical diseases (NTDs). Disease risk estimates are a key feature to target control interventions, and serve as a benchmark for monitoring and evaluation. What is currently missing is a georeferenced global database for NTDs providing open-access to the available survey data that is constantly updated and can be utilized by researchers and disease control managers to support other relevant stakeholders. We describe the steps taken toward the development of such a database that can be employed for spatial disease risk modeling and control of NTDs. Methodology With an emphasis on schistosomiasis in Africa, we systematically searched the literature (peer-reviewed journals and ‘grey literature’), contacted Ministries of Health and research institutions in schistosomiasis-endemic countries for location-specific prevalence data and survey details (e.g., study population, year of survey and diagnostic techniques). The data were extracted, georeferenced, and stored in a MySQL database with a web interface allowing free database access and data management. Principal Findings At the beginning of 2011, our database contained more than 12,000 georeferenced schistosomiasis survey locations from 35 African countries available under http://www.gntd.org. Currently, the database is expanded to a global repository, including a host of other NTDs, e.g. soil-transmitted helminthiasis and leishmaniasis. Conclusions An open-access, spatially explicit NTD database offers unique opportunities for disease risk modeling, targeting control interventions, disease monitoring, and surveillance. Moreover, it allows for detailed geostatistical analyses of disease distribution in space and time. With an initial focus on schistosomiasis in Africa, we demonstrate the proof-of-concept that the establishment and running of a global NTD database is feasible and should be expanded without delay. PMID:22180793
Drawing a representative sample from the NCSS soil database: Building blocks for the national wind erosion network

USDA-ARS?s Scientific Manuscript database

Developing national wind erosion models for the continental United States requires a comprehensive spatial representation of continuous soil particle size distributions (PSD) for model input. While the current coverage of soil survey is nearly complete, the most detailed particle size classes have c...
Registration of terrestrial mobile laser data on 2D or 3D geographic database by use of a non-rigid ICP approach.

NASA Astrophysics Data System (ADS)

Monnier, F.; Vallet, B.; Paparoditis, N.; Papelard, J.-P.; David, N.

2013-10-01

This article presents a generic and efficient method to register terrestrial mobile data with imperfect location on a geographic database with better overall accuracy but less details. The registration method proposed in this paper is based on a semi-rigid point to plane ICP ("Iterative Closest Point"). The main applications of such registration is to improve existing geographic databases, particularly in terms of accuracy, level of detail and diversity of represented objects. Other applications include fine geometric modelling and fine façade texturing, object extraction such as trees, poles, road signs marks, facilities, vehicles, etc. The geopositionning system of mobile mapping systems is affected by GPS masks that are only partially corrected by an Inertial Navigation System (INS) which can cause an important drift. As this drift varies non-linearly, but slowly in time, it will be modelled by a translation defined as a piecewise linear function of time which variation over time will be minimized (rigidity term). For each iteration of the ICP, the drift is estimated in order to minimise the distance between laser points and planar model primitives (data attachment term). The method has been tested on real data (a scan of the city of Paris of 3.6 million laser points registered on a 3D model of approximately 71,400 triangles).
The standard data model approach to patient record transfer.

PubMed Central

Canfield, K.; Silva, M.; Petrucci, K.

1994-01-01

This paper develops an approach to electronic data exchange of patient records from Ambulatory Encounter Systems (AESs). This approach assumes that the AES is based upon a standard data model. The data modeling standard used here is IDEFIX for Entity/Relationship (E/R) modeling. Each site that uses a relational database implementation of this standard data model (or a subset of it) can exchange very detailed patient data with other such sites using industry standard tools and without excessive programming efforts. This design is detailed below for a demonstration project between the research-oriented geriatric clinic at the Baltimore Veterans Affairs Medical Center (BVAMC) and the Laboratory for Healthcare Informatics (LHI) at the University of Maryland. PMID:7949973
Multi-resolution extension for transmission of geodata in a mobile context

NASA Astrophysics Data System (ADS)

Follin, Jean-Michel; Bouju, Alain; Bertrand, Frédéric; Boursier, Patrice

2005-03-01

A solution is proposed for the management of multi-resolution vector data in a mobile spatial information visualization system. The client-server architecture and the models of data and transfer of the system are presented first. The aim of this system is to reduce data exchanged between client and server by reusing data already present on the client side. Then, an extension of this system to multi-resolution data is proposed. Our solution is based on the use of increments in a multi-scale database. A database architecture where data sets for different predefined scales are precomputed and stored on the server side is adopted. In this model, each object representing the same real world entities at different levels of detail has to be linked beforehand. Increments correspond to the difference between two datasets with different levels of detail. They are transmitted in order to increase (or decrease) the detail to the client upon request. They include generalization and refinement operators allowing transitions between the different levels. Finally, a framework suited to the transfer of multi-resolution data in a mobile context is presented. This allows reuse of data locally available at different levels of detail and, in this way, reduces the amount of data transferred between client and server.
BioQ: tracing experimental origins in public genomic databases using a novel data provenance model.

PubMed

Saccone, Scott F; Quan, Jiaxi; Jones, Peter L

2012-04-15

Public genomic databases, which are often used to guide genetic studies of human disease, are now being applied to genomic medicine through in silico integrative genomics. These databases, however, often lack tools for systematically determining the experimental origins of the data. We introduce a new data provenance model that we have implemented in a public web application, BioQ, for assessing the reliability of the data by systematically tracing its experimental origins to the original subjects and biologics. BioQ allows investigators to both visualize data provenance as well as explore individual elements of experimental process flow using precise tools for detailed data exploration and documentation. It includes a number of human genetic variation databases such as the HapMap and 1000 Genomes projects. BioQ is freely available to the public at http://bioq.saclab.net.
Financing a future for public biological data.

PubMed

Ellis, L B; Kalumbi, D

1999-09-01

The public web-based biological database infrastructure is a source of both wonder and worry. Users delight in the ever increasing amounts of information available; database administrators and curators worry about long-term financial support. An earlier study of 153 biological databases (Ellis and Kalumbi, Nature Biotechnol., 16, 1323-1324, 1998) determined that near future (1-5 year) funding for over two-thirds of them was uncertain. More detailed data are required to determine the magnitude of the problem and offer possible solutions. This study examines the finances and use statistics of a few of these organizations in more depth, and reviews several economic models that may help sustain them. Six organizations were studied. Their administrative overhead is fairly low; non-administrative personnel and computer-related costs account for 77% of expenses. One smaller, more specialized US database, in 1997, had 60% of total access from US domains; a majority (56%) of its US accesses came from commercial domains, although only 2% of the 153 databases originally studied received any industrial support. The most popular model used to gain industrial support is asymmetric pricing: preferentially charging the commercial users of a database. At least five biological databases have recently begun using this model. Advertising is another model which may be useful for the more general, more heavily used sites. Microcommerce has promise, especially for databases that do not attract advertisers, but needs further testing. The least income reported for any of the databases studied was $50,000/year; applying this rate to 400 biological databases (a lower limit of the number of such databases, many of which require far larger resources) would mean annual support need of at least $20 million. To obtain this level of support is challenging, yet failure to accept the challenge could be catastrophic. lynda@tc.umn. edu
Information model construction of MES oriented to mechanical blanking workshop

NASA Astrophysics Data System (ADS)

Wang, Jin-bo; Wang, Jin-ye; Yue, Yan-fang; Yao, Xue-min

2016-11-01

Manufacturing Execution System (MES) is one of the crucial technologies to implement informatization management in manufacturing enterprises, and the construction of its information model is the base of MES database development. Basis on the analysis of the manufacturing process information in mechanical blanking workshop and the information requirement of MES every function module, the IDEF1X method was adopted to construct the information model of MES oriented to mechanical blanking workshop, and a detailed description of the data structure feature included in MES every function module and their logical relationship was given from the point of view of information relationship, which laid the foundation for the design of MES database.
Model Study for an Economic Data Program on the Conditions of Arts and Cultural Institutions. Final Report.

ERIC Educational Resources Information Center

Deane, Robert T.; And Others

The development of econometric models and a data base to predict the responsiveness of arts institutions to changes in the economy is reported. The study focused on models for museums, theaters (profit and non-profit), symphony, ballet, opera, and dance. The report details four objectives of the project: to identify useful databases and studies on…
Spatial aspects of building and population exposure data and their implications for global earthquake exposure modeling

USGS Publications Warehouse

Dell’Acqua, F.; Gamba, P.; Jaiswal, K.

2012-01-01

This paper discusses spatial aspects of the global exposure dataset and mapping needs for earthquake risk assessment. We discuss this in the context of development of a Global Exposure Database for the Global Earthquake Model (GED4GEM), which requires compilation of a multi-scale inventory of assets at risk, for example, buildings, populations, and economic exposure. After defining the relevant spatial and geographic scales of interest, different procedures are proposed to disaggregate coarse-resolution data, to map them, and if necessary to infer missing data by using proxies. We discuss the advantages and limitations of these methodologies and detail the potentials of utilizing remote-sensing data. The latter is used especially to homogenize an existing coarser dataset and, where possible, replace it with detailed information extracted from remote sensing using the built-up indicators for different environments. Present research shows that the spatial aspects of earthquake risk computation are tightly connected with the availability of datasets of the resolution necessary for producing sufficiently detailed exposure. The global exposure database designed by the GED4GEM project is able to manage datasets and queries of multiple spatial scales.
A Support Database System for Integrated System Health Management (ISHM)

NASA Technical Reports Server (NTRS)

Schmalzel, John; Figueroa, Jorge F.; Turowski, Mark; Morris, John

2007-01-01

The development, deployment, operation and maintenance of Integrated Systems Health Management (ISHM) applications require the storage and processing of tremendous amounts of low-level data. This data must be shared in a secure and cost-effective manner between developers, and processed within several heterogeneous architectures. Modern database technology allows this data to be organized efficiently, while ensuring the integrity and security of the data. The extensibility and interoperability of the current database technologies also allows for the creation of an associated support database system. A support database system provides additional capabilities by building applications on top of the database structure. These applications can then be used to support the various technologies in an ISHM architecture. This presentation and paper propose a detailed structure and application description for a support database system, called the Health Assessment Database System (HADS). The HADS provides a shared context for organizing and distributing data as well as a definition of the applications that provide the required data-driven support to ISHM. This approach provides another powerful tool for ISHM developers, while also enabling novel functionality. This functionality includes: automated firmware updating and deployment, algorithm development assistance and electronic datasheet generation. The architecture for the HADS has been developed as part of the ISHM toolset at Stennis Space Center for rocket engine testing. A detailed implementation has begun for the Methane Thruster Testbed Project (MTTP) in order to assist in developing health assessment and anomaly detection algorithms for ISHM. The structure of this implementation is shown in Figure 1. The database structure consists of three primary components: the system hierarchy model, the historical data archive and the firmware codebase. The system hierarchy model replicates the physical relationships between system elements to provide the logical context for the database. The historical data archive provides a common repository for sensor data that can be shared between developers and applications. The firmware codebase is used by the developer to organize the intelligent element firmware into atomic units which can be assembled into complete firmware for specific elements.
The establishment of the atmospheric emission inventories of the ESCOMPTE program

NASA Astrophysics Data System (ADS)

François, S.; Grondin, E.; Fayet, S.; Ponche, J.-L.

2005-03-01

Within the frame of the ESCOMPTE program, a spatial emission inventory and an emission database aimed at tropospheric photochemistry intercomparison modeling has been developed under the scientific supervision of the LPCA with the help of the regional coordination of Air Quality network AIRMARAIX. This inventory has been established for all categories of sources (stationary, mobile and biogenic sources) over a domain of 19,600 km 2 centered on the cities of Marseilles-Aix-en-Provence in the southeastern part of France with a spatial resolution of 1 km 2. A yearly inventory for 1999 has been established, and hourly emission inventories for 23 days of June and July 2000 and 2001, corresponding to the intensive measurement periods, have been produced. The 104 chemical species in the inventory have been selected to be relevant with respect to photochemistry modeling according to available data. The entire list of species in the inventory numbers 216 which will allow other future applications of this database. This database is presently the most detailed and complete regional emission database in France. In addition, the database structure and the emission calculation modules have been designed to ensure a better sustainability and upgradeability, being provided with appropriate maintenance software. The general organization and method is summarized and the results obtained for both yearly and hourly emissions are detailed and discussed. Some comparisons have been performed with the existing results in this region to ensure the congruency of the results. This leads to confirm the relevance and the consistency of the ESCOMPTE emission inventory.
Space Launch System Ascent Static Aerodynamic Database Development

NASA Technical Reports Server (NTRS)

Pinier, Jeremy T.; Bennett, David W.; Blevins, John A.; Erickson, Gary E.; Favaregh, Noah M.; Houlden, Heather P.; Tomek, William G.

2014-01-01

This paper describes the wind tunnel testing work and data analysis required to characterize the static aerodynamic environment of NASA's Space Launch System (SLS) ascent portion of flight. Scaled models of the SLS have been tested in transonic and supersonic wind tunnels to gather the high fidelity data that is used to build aerodynamic databases. A detailed description of the wind tunnel test that was conducted to produce the latest version of the database is presented, and a representative set of aerodynamic data is shown. The wind tunnel data quality remains very high, however some concerns with wall interference effects through transonic Mach numbers are also discussed. Post-processing and analysis of the wind tunnel dataset are crucial for the development of a formal ascent aerodynamics database.
Global Comparison of CFD and Wind-Tunnel-Derived Force and Moment Databases for the Space Launch System

NASA Technical Reports Server (NTRS)

Hemsch, Michael J.

2016-01-01

Recently a very large (739 runs) collection of high-fidelity RANS CFD solutions was obtained for Space Launch System ascent aerodynamics for the vehicle to be used for the first exploratory (unmanned) mission (EM-1). The extensive computations, at full-scale conditions, were originally developed to obtain detailed line and protuberance loads and surface pressures for venting analyses. The line loads were eventually integrated for comparison of the resulting forces and moments to the database that was derived from wind tunnel tests conducted at sub-scale conditions. The comparisons presented herein cover the ranges 0.5 < or = M(infinity) < or = 5, -6deg < or = alpha < or = 6deg, and -6deg < or = beta < or = 6deg. For detailed comparisons, slender-body-theory-based component build-up aero models from missile aerodynamics are used. The differences in the model fit coefficients are shown to be relatively small except for the low supersonic Mach number range, 1.1 < or = M(infinity) < or = 2.0. The analysis is intended to support process improvement and development of uncertainty models.
Significant Metalliferous and Selected Non-Metalliferous Lode Deposits, and Selected Placer Districts of Northeast Asia

USGS Publications Warehouse

Ariunbileg, Sodov; Biryul'kin, Gennandiy V.; Byamba, Jamba; Davydov, Yury V.; Dejidmaa, Gunchin; Distanov, Elimir G.; Dorjgotov, Dangindorjiin; Gamyanin, Gennadiy N.; Gerel, Ochir; Fridovskiy, Valeriy Y.; Gotovsuren, Ayurzana; Hwang, Duk-Hwan; Kochnev, Anatoliy P.; Kostin, Alexei V.; Kuzmin, Mikhail I.; Letunov, Sergey A.; Jiliang, Li; Xujun, Li; Malceva, Galina D.; Melnikov, V.D.; Nikitin, Valeriy; Obolenskiy, Alexander A.; Ogasawara, Masatsugu; Orolmaa, Demberel; Parfenov, Leonid M.; Popov, Nikolay V.; Prokopiev, Andrei V.; Ratkin, Vladimir; Rodionov, Sergey M.; Seminskiy, Zhan V.; Shpikerman, Vladimir I.; Smelov, Alexander P.; Sotnikov, Vitaly I.; Spiridonov, Alexander V.; Stogniy, Valeriy V.; Sudo, Sadahisa; Fengyue, Sun; Jiapeng, Sun; Weizhi, Sun; Supletsov, Valeriy M.; Timofeev, Vladimir F.; Tyan, Oleg A.; Vetluzhskikh, Valeriy G.; Aihua, Xi; Yakovlev, Yakov V.; Hongquan, Yan; Zhizhin, Vladimir I.; Zinchuk, Nikolay N.; Zorina, Lydia M.

2003-01-01

Introduction This report contains a digtial database on lode deposits and placer districts of Northeast Asia. This region includes Eastern Siberia, Russian Far East, Mongolia, Northeast China, South Korea, and Japan. In folders on this site are a detailed database, a bibliography of cited references, descriptions of mineral deposit models, and a mineral deposit location map. Data are provided for 1,674 significant lode deposits and 91 significant placer districts of the region.
DBCreate: A SUPCRT92-based program for producing EQ3/6, TOUGHREACT, and GWB thermodynamic databases at user-defined T and P

NASA Astrophysics Data System (ADS)

Kong, Xiang-Zhao; Tutolo, Benjamin M.; Saar, Martin O.

2013-02-01

SUPCRT92 is a widely used software package for calculating the standard thermodynamic properties of minerals, gases, aqueous species, and reactions. However, it is labor-intensive and error-prone to use it directly to produce databases for geochemical modeling programs such as EQ3/6, the Geochemist's Workbench, and TOUGHREACT. DBCreate is a SUPCRT92-based software program written in FORTRAN90/95 and was developed in order to produce the required databases for these programs in a rapid and convenient way. This paper describes the overall structure of the program and provides detailed usage instructions.
Multi-Group Reductions of LTE Air Plasma Radiative Transfer in Cylindrical Geometries

NASA Technical Reports Server (NTRS)

Scoggins, James; Magin, Thierry Edouard Bertran; Wray, Alan; Mansour, Nagi N.

2013-01-01

Air plasma radiation in Local Thermodynamic Equilibrium (LTE) within cylindrical geometries is studied with an application towards modeling the radiative transfer inside arc-constrictors, a central component of constricted-arc arc jets. A detailed database of spectral absorption coefficients for LTE air is formulated using the NEQAIR code developed at NASA Ames Research Center. The database stores calculated absorption coefficients for 1,051,755 wavelengths between 0.04 µm and 200 µm over a wide temperature (500K to 15 000K) and pressure (0.1 atm to 10.0 atm) range. The multi-group method for spectral reduction is studied by generating a range of reductions including pure binning and banding reductions from the detailed absorption coefficient database. The accuracy of each reduction is compared to line-by-line calculations for cylindrical temperature profiles resembling typical profiles found in arc-constrictors. It is found that a reduction of only 1000 groups is sufficient to accurately model the LTE air radiation over a large temperature and pressure range. In addition to the reduction comparison, the cylindrical-slab formulation is compared with the finite-volume method for the numerical integration of the radiative flux inside cylinders with varying length. It is determined that cylindrical-slabs can be used to accurately model most arc-constrictors due to their high length to radius ratios.
The FRUITY database on AGB stars: past, present and future

NASA Astrophysics Data System (ADS)

Cristallo, S.; Piersanti, L.; Straniero, O.

2016-01-01

We present and show the features of the FRUITY database, an interactive web- based interface devoted to the nucleosynthesis in AGB stars. We describe the current available set of AGB models (largely expanded with respect to the original one) with masses in the range 1.3≤M/M⊙≤3.0 and metallicities -2.15 ≤[Fe/H]≤+0.15. We illustrate the details of our s-process surface distributions and we compare our results to observations. Moreover, we introduce a new set of models where the effects of rotation are taken into account. Finally, we shortly describe next planned upgrades.

The Primate Life History Database: A unique shared ecological data resource

PubMed Central

Strier, Karen B.; Altmann, Jeanne; Brockman, Diane K.; Bronikowski, Anne M.; Cords, Marina; Fedigan, Linda M.; Lapp, Hilmar; Liu, Xianhua; Morris, William F.; Pusey, Anne E.; Stoinski, Tara S.; Alberts, Susan C.

2011-01-01

Summary The importance of data archiving, data sharing, and public access to data has received considerable attention. Awareness is growing among scientists that collaborative databases can facilitate these activities.We provide a detailed description of the collaborative life history database developed by our Working Group at the National Evolutionary Synthesis Center (NESCent) to address questions about life history patterns and the evolution of mortality and demographic variability in wild primates.Examples from each of the seven primate species included in our database illustrate the range of data incorporated and the challenges, decision-making processes, and criteria applied to standardize data across diverse field studies. In addition to the descriptive and structural metadata associated with our database, we also describe the process metadata (how the database was designed and delivered) and the technical specifications of the database.Our database provides a useful model for other researchers interested in developing similar types of databases for other organisms, while our process metadata may be helpful to other groups of researchers interested in developing databases for other types of collaborative analyses. PMID:21698066
Finding mouse models of human lymphomas and leukemia's using the Jackson laboratory mouse tumor biology database.

PubMed

Begley, Dale A; Sundberg, John P; Krupke, Debra M; Neuhauser, Steven B; Bult, Carol J; Eppig, Janan T; Morse, Herbert C; Ward, Jerrold M

2015-12-01

Many mouse models have been created to study hematopoietic cancer types. There are over thirty hematopoietic tumor types and subtypes, both human and mouse, with various origins, characteristics and clinical prognoses. Determining the specific type of hematopoietic lesion produced in a mouse model and identifying mouse models that correspond to the human subtypes of these lesions has been a continuing challenge for the scientific community. The Mouse Tumor Biology Database (MTB; http://tumor.informatics.jax.org) is designed to facilitate use of mouse models of human cancer by providing detailed histopathologic and molecular information on lymphoma subtypes, including expertly annotated, on line, whole slide scans, and providing a repository for storing information on and querying these data for specific lymphoma models. Copyright © 2015 Elsevier Inc. All rights reserved.
A database for reproducible manipulation research: CapriDB - Capture, Print, Innovate.

PubMed

Pokorny, Florian T; Bekiroglu, Yasemin; Pauwels, Karl; Butepage, Judith; Scherer, Clara; Kragic, Danica

2017-04-01

We present a novel approach and database which combines the inexpensive generation of 3D object models via monocular or RGB-D camera images with 3D printing and a state of the art object tracking algorithm. Unlike recent efforts towards the creation of 3D object databases for robotics, our approach does not require expensive and controlled 3D scanning setups and aims to enable anyone with a camera to scan, print and track complex objects for manipulation research. The proposed approach results in detailed textured mesh models whose 3D printed replicas provide close approximations of the originals. A key motivation for utilizing 3D printed objects is the ability to precisely control and vary object properties such as the size, material properties and mass distribution in the 3D printing process to obtain reproducible conditions for robotic manipulation research. We present CapriDB - an extensible database resulting from this approach containing initially 40 textured and 3D printable mesh models together with tracking features to facilitate the adoption of the proposed approach.
The LatHyS database for planetary plasma environment investigations: Overview and a case study of data/model comparisons

NASA Astrophysics Data System (ADS)

Modolo, R.; Hess, S.; Génot, V.; Leclercq, L.; Leblanc, F.; Chaufray, J.-Y.; Weill, P.; Gangloff, M.; Fedorov, A.; Budnik, E.; Bouchemit, M.; Steckiewicz, M.; André, N.; Beigbeder, L.; Popescu, D.; Toniutti, J.-P.; Al-Ubaidi, T.; Khodachenko, M.; Brain, D.; Curry, S.; Jakosky, B.; Holmström, M.

2018-01-01

We present the Latmos Hybrid Simulation (LatHyS) database, which is dedicated to the investigations of planetary plasma environment. Simulation results of several planetary objects (Mars, Mercury, Ganymede) are available in an online catalogue. The full description of the simulations and their results is compliant with a data model developped in the framework of the FP7 IMPEx project. The catalogue is interfaced with VO-visualization tools such AMDA, 3DView, TOPCAT, CLweb or the IMPEx portal. Web services ensure the possibilities of accessing and extracting simulated quantities/data. We illustrate the interoperability between the simulation database and VO-tools using a detailed science case that focuses on a three-dimensional representation of the solar wind interaction with the Martian upper atmosphere, combining MAVEN and Mars Express observations and simulation results.
BioQ: tracing experimental origins in public genomic databases using a novel data provenance model

PubMed Central

Saccone, Scott F.; Quan, Jiaxi; Jones, Peter L.

2012-01-01

Motivation: Public genomic databases, which are often used to guide genetic studies of human disease, are now being applied to genomic medicine through in silico integrative genomics. These databases, however, often lack tools for systematically determining the experimental origins of the data. Results: We introduce a new data provenance model that we have implemented in a public web application, BioQ, for assessing the reliability of the data by systematically tracing its experimental origins to the original subjects and biologics. BioQ allows investigators to both visualize data provenance as well as explore individual elements of experimental process flow using precise tools for detailed data exploration and documentation. It includes a number of human genetic variation databases such as the HapMap and 1000 Genomes projects. Availability and implementation: BioQ is freely available to the public at http://bioq.saclab.net Contact: ssaccone@wustl.edu Supplementary information: Supplementary data are available at Bioinformatics online. PMID:22426342
Molecular Oxygen in the Thermosphere: Issues and Measurement Strategies

NASA Astrophysics Data System (ADS)

Picone, J. M.; Hedin, A. E.; Drob, D. P.; Meier, R. R.; Bishop, J.; Budzien, S. A.

2002-05-01

We review the state of empirical knowledge regarding the distribution of molecular oxygen in the lower thermosphere (100-200 km), as embodied by the new NRLMSISE-00 empirical atmospheric model, its predecessors, and the underlying databases. For altitudes above 120 km, the two major classes of data (mass spectrometer and solar ultraviolet [UV] absorption) disagree significantly regarding the magnitude of the O2 density and the dependence on solar activity. As a result, the addition of the Solar Maximum Mission (SMM) data set (based on solar UV absorption) to the NRLMSIS database has directly impacted the new model, increasing the complexity of the model's formulation and generally reducing the thermospheric O2 density relative to MSISE-90. Beyond interest in the thermosphere itself, this issue materially affects detailed models of ionospheric chemistry and dynamics as well as modeling of the upper atmospheric airglow. Because these are key elements of both experimental and operational systems which measure and forecast the near-Earth space environment, we present strategies for augmenting the database through analysis of existing data and through future measurements in order to resolve this issue.
Knowledge representation in metabolic pathway databases.

PubMed

Stobbe, Miranda D; Jansen, Gerbert A; Moerland, Perry D; van Kampen, Antoine H C

2014-05-01

The accurate representation of all aspects of a metabolic network in a structured format, such that it can be used for a wide variety of computational analyses, is a challenge faced by a growing number of researchers. Analysis of five major metabolic pathway databases reveals that each database has made widely different choices to address this challenge, including how to deal with knowledge that is uncertain or missing. In concise overviews, we show how concepts such as compartments, enzymatic complexes and the direction of reactions are represented in each database. Importantly, also concepts which a database does not represent are described. Which aspects of the metabolic network need to be available in a structured format and to what detail differs per application. For example, for in silico phenotype prediction, a detailed representation of gene-protein-reaction relations and the compartmentalization of the network is essential. Our analysis also shows that current databases are still limited in capturing all details of the biology of the metabolic network, further illustrated with a detailed analysis of three metabolic processes. Finally, we conclude that the conceptual differences between the databases, which make knowledge exchange and integration a challenge, have not been resolved, so far, by the exchange formats in which knowledge representation is standardized.
PAMDB: a comprehensive Pseudomonas aeruginosa metabolome database.

PubMed

Huang, Weiliang; Brewer, Luke K; Jones, Jace W; Nguyen, Angela T; Marcu, Ana; Wishart, David S; Oglesby-Sherrouse, Amanda G; Kane, Maureen A; Wilks, Angela

2018-01-04

The Pseudomonas aeruginosaMetabolome Database (PAMDB, http://pseudomonas.umaryland.edu) is a searchable, richly annotated metabolite database specific to P. aeruginosa. P. aeruginosa is a soil organism and significant opportunistic pathogen that adapts to its environment through a versatile energy metabolism network. Furthermore, P. aeruginosa is a model organism for the study of biofilm formation, quorum sensing, and bioremediation processes, each of which are dependent on unique pathways and metabolites. The PAMDB is modelled on the Escherichia coli (ECMDB), yeast (YMDB) and human (HMDB) metabolome databases and contains >4370 metabolites and 938 pathways with links to over 1260 genes and proteins. The database information was compiled from electronic databases, journal articles and mass spectrometry (MS) metabolomic data obtained in our laboratories. For each metabolite entered, we provide detailed compound descriptions, names and synonyms, structural and physiochemical information, nuclear magnetic resonance (NMR) and MS spectra, enzymes and pathway information, as well as gene and protein sequences. The database allows extensive searching via chemical names, structure and molecular weight, together with gene, protein and pathway relationships. The PAMBD and its future iterations will provide a valuable resource to biologists, natural product chemists and clinicians in identifying active compounds, potential biomarkers and clinical diagnostics. © The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.
Computerized technique for recording board defect data

Treesearch

R. Bruce Anderson; R. Edward Thomas; Charles J. Gatchell; Neal D. Bennett; Neal D. Bennett

1993-01-01

A computerized technique for recording board defect data has been developed that is faster and more accurate than manual techniques. The lumber database generated by this technique is a necessary input to computer simulation models that estimate potential cutting yields from various lumber breakdown sequences. The technique allows collection of detailed information...
A computational platform to maintain and migrate manual functional annotations for BioCyc databases.

PubMed

Walsh, Jesse R; Sen, Taner Z; Dickerson, Julie A

2014-10-12

BioCyc databases are an important resource for information on biological pathways and genomic data. Such databases represent the accumulation of biological data, some of which has been manually curated from literature. An essential feature of these databases is the continuing data integration as new knowledge is discovered. As functional annotations are improved, scalable methods are needed for curators to manage annotations without detailed knowledge of the specific design of the BioCyc database. We have developed CycTools, a software tool which allows curators to maintain functional annotations in a model organism database. This tool builds on existing software to improve and simplify annotation data imports of user provided data into BioCyc databases. Additionally, CycTools automatically resolves synonyms and alternate identifiers contained within the database into the appropriate internal identifiers. Automating steps in the manual data entry process can improve curation efforts for major biological databases. The functionality of CycTools is demonstrated by transferring GO term annotations from MaizeCyc to matching proteins in CornCyc, both maize metabolic pathway databases available at MaizeGDB, and by creating strain specific databases for metabolic engineering.
Recent Updates to the System Advisor Model (SAM)

DOE Office of Scientific and Technical Information (OSTI.GOV)

DiOrio, Nicholas A

The System Advisor Model (SAM) is a mature suite of techno-economic models for many renewable energy technologies that can be downloaded for free as a desktop application or software development kit. SAM is used for system-level modeling, including generating performance pro the release of the code as an open source project on GitHub. Other additions that will be covered include the ability to download data directly into SAM from the National Solar Radiation Database (NSRDB) and up- dates to a user-interface macro that assists with PV system sizing. A brief update on SAM's battery model and its integration with themore » detailed photovoltaic model will also be discussed. Finally, an outline of planned work for the next year will be presented, including the addition of a bifacial model, support for multiple MPPT inputs for detailed inverter modeling, and the addition of a model for inverter thermal behavior.« less
Development of a database for chemical mechanism assignments for volatile organic emissions.

PubMed

Carter, William P L

2015-10-01

The development of a database for making model species assignments when preparing total organic gas (TOG) emissions input for atmospheric models is described. This database currently has assignments of model species for 12 different gas-phase chemical mechanisms for over 1700 chemical compounds and covers over 3000 chemical categories used in five different anthropogenic TOG profile databases or output by two different biogenic emissions models. This involved developing a unified chemical classification system, assigning compounds to mixtures, assigning model species for the mechanisms to the compounds, and making assignments for unknown, unassigned, and nonvolatile mass. The comprehensiveness of the assignments, the contributions of various types of speciation categories to current profile and total emissions data, inconsistencies with existing undocumented model species assignments, and remaining speciation issues and areas of needed work are also discussed. The use of the system to prepare input for SMOKE, the Speciation Tool, and for biogenic models is described in the supplementary materials. The database, associated programs and files, and a users manual are available online at http://www.cert.ucr.edu/~carter/emitdb . Assigning air quality model species to the hundreds of emitted chemicals is a necessary link between emissions data and modeling effects of emissions on air quality. This is not easy and makes it difficult to implement new and more chemically detailed mechanisms in models. If done incorrectly, it is similar to errors in emissions speciation or the chemical mechanism used. Nevertheless, making such assignments is often an afterthought in chemical mechanism development and emissions processing, and existing assignments are usually undocumented and have errors and inconsistencies. This work is designed to address some of these problems.
Design and Implementation of 3D Model Data Management System Based on SQL

NASA Astrophysics Data System (ADS)

Li, Shitao; Zhang, Shixin; Zhang, Zhanling; Li, Shiming; Jia, Kun; Hu, Zhongxu; Ping, Liang; Hu, Youming; Li, Yanlei

CAD/CAM technology plays an increasingly important role in the machinery manufacturing industry. As an important means of production, the accumulated three-dimensional models in many years of design work are valuable. Thus the management of these three-dimensional models is of great significance. This paper gives detailed explanation for a method to design three-dimensional model databases based on SQL and to implement the functions such as insertion, modification, inquiry, preview and so on.
The systematic annotation of the three main GPCR families in Reactome.

PubMed

Jassal, Bijay; Jupe, Steven; Caudy, Michael; Birney, Ewan; Stein, Lincoln; Hermjakob, Henning; D'Eustachio, Peter

2010-07-29

Reactome is an open-source, freely available database of human biological pathways and processes. A major goal of our work is to provide an integrated view of cellular signalling processes that spans from ligand-receptor interactions to molecular readouts at the level of metabolic and transcriptional events. To this end, we have built the first catalogue of all human G protein-coupled receptors (GPCRs) known to bind endogenous or natural ligands. The UniProt database has records for 797 proteins classified as GPCRs and sorted into families A/1, B/2 and C/3 on the basis of amino acid sequence. To these records we have added details from the IUPHAR database and our own manual curation of relevant literature to create reactions in which 563 GPCRs bind ligands and also interact with specific G-proteins to initiate signalling cascades. We believe the remaining 234 GPCRs are true orphans. The Reactome GPCR pathway can be viewed as a detailed interactive diagram and can be exported in many forms. It provides a template for the orthology-based inference of GPCR reactions for diverse model organism species, and can be overlaid with protein-protein interaction and gene expression datasets to facilitate overrepresentation studies and other forms of pathway analysis. Database URL: http://www.reactome.org.
Plant Reactome: a resource for plant pathways and comparative analysis

PubMed Central

Naithani, Sushma; Preece, Justin; D'Eustachio, Peter; Gupta, Parul; Amarasinghe, Vindhya; Dharmawardhana, Palitha D.; Wu, Guanming; Fabregat, Antonio; Elser, Justin L.; Weiser, Joel; Keays, Maria; Fuentes, Alfonso Munoz-Pomer; Petryszak, Robert; Stein, Lincoln D.; Ware, Doreen; Jaiswal, Pankaj

2017-01-01

Plant Reactome (http://plantreactome.gramene.org/) is a free, open-source, curated plant pathway database portal, provided as part of the Gramene project. The database provides intuitive bioinformatics tools for the visualization, analysis and interpretation of pathway knowledge to support genome annotation, genome analysis, modeling, systems biology, basic research and education. Plant Reactome employs the structural framework of a plant cell to show metabolic, transport, genetic, developmental and signaling pathways. We manually curate molecular details of pathways in these domains for reference species Oryza sativa (rice) supported by published literature and annotation of well-characterized genes. Two hundred twenty-two rice pathways, 1025 reactions associated with 1173 proteins, 907 small molecules and 256 literature references have been curated to date. These reference annotations were used to project pathways for 62 model, crop and evolutionarily significant plant species based on gene homology. Database users can search and browse various components of the database, visualize curated baseline expression of pathway-associated genes provided by the Expression Atlas and upload and analyze their Omics datasets. The database also offers data access via Application Programming Interfaces (APIs) and in various standardized pathway formats, such as SBML and BioPAX. PMID:27799469
Global search tool for the Advanced Photon Source Integrated Relational Model of Installed Systems (IRMIS) database.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Quock, D. E. R.; Cianciarulo, M. B.; APS Engineering Support Division

2007-01-01

The Integrated Relational Model of Installed Systems (IRMIS) is a relational database tool that has been implemented at the Advanced Photon Source to maintain an updated account of approximately 600 control system software applications, 400,000 process variables, and 30,000 control system hardware components. To effectively display this large amount of control system information to operators and engineers, IRMIS was initially built with nine Web-based viewers: Applications Organizing Index, IOC, PLC, Component Type, Installed Components, Network, Controls Spares, Process Variables, and Cables. However, since each viewer is designed to provide details from only one major category of the control system, themore » necessity for a one-stop global search tool for the entire database became apparent. The user requirements for extremely fast database search time and ease of navigation through search results led to the choice of Asynchronous JavaScript and XML (AJAX) technology in the implementation of the IRMIS global search tool. Unique features of the global search tool include a two-tier level of displayed search results, and a database data integrity validation and reporting mechanism.« less
A database of aerothermal measurements in hypersonic flow for CFD validation

NASA Technical Reports Server (NTRS)

Holden, M. S.; Moselle, J. R.

1992-01-01

This paper presents an experimental database selected and compiled from aerothermal measurements obtained on basic model configurations on which fundamental flow phenomena could be most easily examined. The experimental studies were conducted in hypersonic flows in 48-inch, 96-inch, and 6-foot shock tunnels. A special computer program was constructed to provide easy access to the measurements in the database as well as the means to plot the measurements and compare them with imported data. The database contains tabulations of model configurations, freestream conditions, and measurements of heat transfer, pressure, and skin friction for each of the studies selected for inclusion. The first segment contains measurements in laminar flow emphasizing shock-wave boundary-layer interaction. In the second segment, measurements in transitional flows over flat plates and cones are given. The third segment comprises measurements in regions of shock-wave/turbulent-boundary-layer interactions. Studies of the effects of surface roughness of nosetips and conical afterbodies are presented in the fourth segment of the database. Detailed measurements in regions of shock/shock boundary layer interaction are contained in the fifth segment. Measurements in regions of wall jet and transpiration cooling are presented in the final two segments.
A dynamic appearance descriptor approach to facial actions temporal modeling.

PubMed

Jiang, Bihan; Valstar, Michel; Martinez, Brais; Pantic, Maja

2014-02-01

Both the configuration and the dynamics of facial expressions are crucial for the interpretation of human facial behavior. Yet to date, the vast majority of reported efforts in the field either do not take the dynamics of facial expressions into account, or focus only on prototypic facial expressions of six basic emotions. Facial dynamics can be explicitly analyzed by detecting the constituent temporal segments in Facial Action Coding System (FACS) Action Units (AUs)-onset, apex, and offset. In this paper, we present a novel approach to explicit analysis of temporal dynamics of facial actions using the dynamic appearance descriptor Local Phase Quantization from Three Orthogonal Planes (LPQ-TOP). Temporal segments are detected by combining a discriminative classifier for detecting the temporal segments on a frame-by-frame basis with Markov Models that enforce temporal consistency over the whole episode. The system is evaluated in detail over the MMI facial expression database, the UNBC-McMaster pain database, the SAL database, the GEMEP-FERA dataset in database-dependent experiments, in cross-database experiments using the Cohn-Kanade, and the SEMAINE databases. The comparison with other state-of-the-art methods shows that the proposed LPQ-TOP method outperforms the other approaches for the problem of AU temporal segment detection, and that overall AU activation detection benefits from dynamic appearance information.
Measuring and predicting sooting tendencies of oxygenates, alkanes, alkenes, cycloalkanes, and aromatics on a unified scale

DOE PAGES

Das, Dhrubajyoti D.; St. John, Peter C.; McEnally, Charles S.; ...

2017-12-27

Databases of sooting indices, based on measuring some aspect of sooting behavior in a standardized combustion environment, are useful in providing information on the comparative sooting tendencies of different fuels or pure compounds. However, newer biofuels have varied chemical structures including both aromatic and oxygenated functional groups, which expands the chemical space of relevant compounds. In this work, we propose a unified sooting tendency database for pure compounds, including both regular and oxygenated hydrocarbons, which is based on combining two disparate databases of yield-based sooting tendency measurements in the literature. Unification of the different databases was made possible by leveragingmore » the greater dynamic range of the color ratio pyrometry soot diagnostic. This unified database contains a substantial number of pure compounds (≥ 400 total) from multiple categories of hydrocarbons important in modern fuels and establishes the sooting tendencies of aromatic and oxygenated hydrocarbons on the same numeric scale for the first time. Then, using this unified sooting tendency database, we have developed a predictive model for sooting behavior applicable to a broad range of hydrocarbons and oxygenated hydrocarbons. The model decomposes each compound into single-carbon fragments and assigns a sooting tendency contribution to each fragment based on regression against the unified database. The model’s predictive accuracy (as demonstrated by leave-one-out cross-validation) is comparable to a previously developed, more detailed predictive model. The fitted model provides insight into the effects of chemical structure on soot formation, and cases where its predictions fail reveal the presence of more complicated kinetic sooting mechanisms. Our work will therefore enable the rational design of low-sooting fuel blends from a wide range of feedstocks and chemical functionalities.« less
Measuring and predicting sooting tendencies of oxygenates, alkanes, alkenes, cycloalkanes, and aromatics on a unified scale

DOE Office of Scientific and Technical Information (OSTI.GOV)

Das, Dhrubajyoti D.; St. John, Peter C.; McEnally, Charles S.

Databases of sooting indices, based on measuring some aspect of sooting behavior in a standardized combustion environment, are useful in providing information on the comparative sooting tendencies of different fuels or pure compounds. However, newer biofuels have varied chemical structures including both aromatic and oxygenated functional groups, which expands the chemical space of relevant compounds. In this work, we propose a unified sooting tendency database for pure compounds, including both regular and oxygenated hydrocarbons, which is based on combining two disparate databases of yield-based sooting tendency measurements in the literature. Unification of the different databases was made possible by leveragingmore » the greater dynamic range of the color ratio pyrometry soot diagnostic. This unified database contains a substantial number of pure compounds (≥ 400 total) from multiple categories of hydrocarbons important in modern fuels and establishes the sooting tendencies of aromatic and oxygenated hydrocarbons on the same numeric scale for the first time. Then, using this unified sooting tendency database, we have developed a predictive model for sooting behavior applicable to a broad range of hydrocarbons and oxygenated hydrocarbons. The model decomposes each compound into single-carbon fragments and assigns a sooting tendency contribution to each fragment based on regression against the unified database. The model’s predictive accuracy (as demonstrated by leave-one-out cross-validation) is comparable to a previously developed, more detailed predictive model. The fitted model provides insight into the effects of chemical structure on soot formation, and cases where its predictions fail reveal the presence of more complicated kinetic sooting mechanisms. Our work will therefore enable the rational design of low-sooting fuel blends from a wide range of feedstocks and chemical functionalities.« less

Directly e-mailing authors of newly published papers encourages community curation

PubMed Central

Bunt, Stephanie M.; Grumbling, Gary B.; Field, Helen I.; Marygold, Steven J.; Brown, Nicholas H.; Millburn, Gillian H.

2012-01-01

Much of the data within Model Organism Databases (MODs) comes from manual curation of the primary research literature. Given limited funding and an increasing density of published material, a significant challenge facing all MODs is how to efficiently and effectively prioritize the most relevant research papers for detailed curation. Here, we report recent improvements to the triaging process used by FlyBase. We describe an automated method to directly e-mail corresponding authors of new papers, requesting that they list the genes studied and indicate (‘flag’) the types of data described in the paper using an online tool. Based on the author-assigned flags, papers are then prioritized for detailed curation and channelled to appropriate curator teams for full data extraction. The overall response rate has been 44% and the flagging of data types by authors is sufficiently accurate for effective prioritization of papers. In summary, we have established a sustainable community curation program, with the result that FlyBase curators now spend less time triaging and can devote more effort to the specialized task of detailed data extraction. Database URL: http://flybase.org/ PMID:22554788
An Index to PGE-Ni-Cr Deposits and Occurrences in Selected Mineral-Occurrence Databases

USGS Publications Warehouse

Causey, J. Douglas; Galloway, John P.; Zientek, Michael L.

2009-01-01

Databases of mineral deposits and occurrences are essential to conducting assessments of undiscovered mineral resources. In the USGS's (U.S. Geological Survey) global assessment of undiscovered resources of copper, potash, and the platinum-group elements (PGE), only a few mineral deposit types will be evaluated. For example, only porphyry-copper and sediment-hosted copper deposits will be considered for the copper assessment. To support the global assessment, the USGS prepared comprehensive compilations of the occurrences of these two deposit types in order to develop grade and tonnage models and delineate permissive areas for undiscovered deposits of those types. This publication identifies previously published databases and database records that describe PGE, nickel, and chromium deposits and occurrences. Nickel and chromium were included in this overview because of the close association of PGE with nickel and chromium mineralization. Users of this database will need to refer to the original databases for detailed information about the deposits and occurrences. This information will be used to develop a current and comprehensive global database of PGE deposits and occurrences.
Modeling epidemics on adaptively evolving networks: A data-mining perspective.

PubMed

Kattis, Assimakis A; Holiday, Alexander; Stoica, Ana-Andreea; Kevrekidis, Ioannis G

2016-01-01

The exploration of epidemic dynamics on dynamically evolving ("adaptive") networks poses nontrivial challenges to the modeler, such as the determination of a small number of informative statistics of the detailed network state (that is, a few "good observables") that usefully summarize the overall (macroscopic, systems-level) behavior. Obtaining reduced, small size accurate models in terms of these few statistical observables--that is, trying to coarse-grain the full network epidemic model to a small but useful macroscopic one--is even more daunting. Here we describe a data-based approach to solving the first challenge: the detection of a few informative collective observables of the detailed epidemic dynamics. This is accomplished through Diffusion Maps (DMAPS), a recently developed data-mining technique. We illustrate the approach through simulations of a simple mathematical model of epidemics on a network: a model known to exhibit complex temporal dynamics. We discuss potential extensions of the approach, as well as possible shortcomings.
Assessing efficiency of software production for NASA-SEL data

NASA Technical Reports Server (NTRS)

Vonmayrhauser, Anneliese; Roeseler, Armin

1993-01-01

This paper uses production models to identify and quantify efficient allocation of resources and key drivers of software productivity for project data in the NASA-SEL database. While analysis allows identification of efficient projects, many of the metrics that could have provided a more detailed analysis are not at a level of measurement to allow production model analysis. Production models must be used with proper parameterization to be successful. This may mean a new look at which metrics are helpful for efficiency assessment.
The Monitoring Erosion of Agricultural Land and spatial database of erosion events

NASA Astrophysics Data System (ADS)

Kapicka, Jiri; Zizala, Daniel

2013-04-01

In 2011 originated in The Czech Republic The Monitoring Erosion of Agricultural Land as joint project of State Land Office (SLO) and Research Institute for Soil and Water Conservation (RISWC). The aim of the project is collecting and record keeping information about erosion events on agricultural land and their evaluation. The main idea is a creation of a spatial database that will be source of data and information for evaluation and modeling erosion process, for proposal of preventive measures and measures to reduce negative impacts of erosion events. A subject of monitoring is the manifestations of water erosion, wind erosion and slope deformation in which cause damaged agriculture land. A website, available on http://me.vumop.cz, is used as a tool for keeping and browsing information about monitored events. SLO employees carry out record keeping. RISWC is specialist institute in the Monitoring Erosion of Agricultural Land that performs keeping the spatial database, running the website, managing the record keeping of events, analysis the cause of origins events and statistical evaluations of keeping events and proposed measures. Records are inserted into the database using the user interface of the website which has map server as a component. Website is based on database technology PostgreSQL with superstructure PostGIS and MapServer UMN. Each record is in the database spatial localized by a drawing and it contains description information about character of event (data, situation description etc.) then there are recorded information about land cover and about grown crops. A part of database is photodocumentation which is taken in field reconnaissance which is performed within two days after notify of event. Another part of database are information about precipitations from accessible precipitation gauges. Website allows to do simple spatial analysis as are area calculation, slope calculation, percentage representation of GAEC etc.. Database structure was designed on the base of needs analysis inputs to mathematical models. Mathematical models are used for detailed analysis of chosen erosion events which include soil analysis. Till the end 2012 has had the database 135 events. The content of database still accrues and gives rise to the extensive source of data that is usable for testing mathematical models.
The Challenges of Plasma Modeling: Current Status and Future Plans

NASA Astrophysics Data System (ADS)

Foster, A. R.; Smith, R. K.; Brickhouse, N. S.; Kallman, T. R.; Witthoeft, M. C.

2010-12-01

Successfully modeling X-ray emission from astrophysical plasmas requires a wide range of atomic data to be rapidly accessible by modeling codes, enabling calculation of synthetic spectra for fitting with observations. Over many years the astrophysical databases have roughly kept pace with the advances in detector and spectrometer technology. We outline here the basic atomic processes contributing to the emission from different types of plasmas and briefly touch on the difference between the methods used to calculate this data. We then discuss in more detail the different issues addressed by atomic databases in regards to what data to store and how to make it accessible. Finally, the question of the effect of uncertainties in atomic data is explored, as a reminder to observers that atomic data is not known to infinite precision, and should not be treated as such.
Relational-database model for improving quality assurance and process control in a composite manufacturing environment

NASA Astrophysics Data System (ADS)

Gentry, Jeffery D.

2000-05-01

A relational database is a powerful tool for collecting and analyzing the vast amounts of inner-related data associated with the manufacture of composite materials. A relational database contains many individual database tables that store data that are related in some fashion. Manufacturing process variables as well as quality assurance measurements can be collected and stored in database tables indexed according to lot numbers, part type or individual serial numbers. Relationships between manufacturing process and product quality can then be correlated over a wide range of product types and process variations. This paper presents details on how relational databases are used to collect, store, and analyze process variables and quality assurance data associated with the manufacture of advanced composite materials. Important considerations are covered including how the various types of data are organized and how relationships between the data are defined. Employing relational database techniques to establish correlative relationships between process variables and quality assurance measurements is then explored. Finally, the benefits of database techniques such as data warehousing, data mining and web based client/server architectures are discussed in the context of composite material manufacturing.
(abstract) Modeling Protein Families and Human Genes: Hidden Markov Models and a Little Beyond

NASA Technical Reports Server (NTRS)

Baldi, Pierre

1994-01-01

We will first give a brief overview of Hidden Markov Models (HMMs) and their use in Computational Molecular Biology. In particular, we will describe a detailed application of HMMs to the G-Protein-Coupled-Receptor Superfamily. We will also describe a number of analytical results on HMMs that can be used in discrimination tests and database mining. We will then discuss the limitations of HMMs and some new directions of research. We will conclude with some recent results on the application of HMMs to human gene modeling and parsing.
American Guild of Musical Artists: A Case for System Development, Data Modeling, and Analytics

ERIC Educational Resources Information Center

Harris, Ranida; Wedel, Thomas

2017-01-01

This article presents a case scenario that may be used in system analysis and design, database management, and business analytics classes. The case document includes realistic, detailed information on the operations at the American Guild of Musical Artists (AGMA). Examples of assignments for each class and suggested reading are presented. In each…
Grid2: A Program for Rapid Estimation of the Jovian Radiation Environment

NASA Technical Reports Server (NTRS)

Evans, R. W.; Brinza, D. E.

2014-01-01

Grid2 is a program that utilizes the Galileo Interim Radiation Electron model 2 (GIRE2) Jovian radiation model to compute fluences and doses for Jupiter missions. (Note: The iterations of these two softwares have been GIRE and GIRE2; likewise Grid and Grid2.) While GIRE2 is an important improvement over the original GIRE radiation model, the GIRE2 model can take as long as a day or more to compute these quantities for a complete mission. Grid2 fits the results of the detailed GIRE2 code with a set of grids in local time and position thereby greatly speeding up the execution of the model-minutes as opposed to days. The Grid2 model covers the time period from 1971 to 2050 and distances of 1.03 to 30 Jovian diameters (Rj). It is available as a direct-access database through a FORTRAN interface program. The new database is only slightly larger than the original grid version: 1.5 gigabytes (GB) versus 1.2 GB.
IDAAPM: integrated database of ADMET and adverse effects of predictive modeling based on FDA approved drug data.

PubMed

Legehar, Ashenafi; Xhaard, Henri; Ghemtio, Leo

2016-01-01

The disposition of a pharmaceutical compound within an organism, i.e. its Absorption, Distribution, Metabolism, Excretion, Toxicity (ADMET) properties and adverse effects, critically affects late stage failure of drug candidates and has led to the withdrawal of approved drugs. Computational methods are effective approaches to reduce the number of safety issues by analyzing possible links between chemical structures and ADMET or adverse effects, but this is limited by the size, quality, and heterogeneity of the data available from individual sources. Thus, large, clean and integrated databases of approved drug data, associated with fast and efficient predictive tools are desirable early in the drug discovery process. We have built a relational database (IDAAPM) to integrate available approved drug data such as drug approval information, ADMET and adverse effects, chemical structures and molecular descriptors, targets, bioactivity and related references. The database has been coupled with a searchable web interface and modern data analytics platform (KNIME) to allow data access, data transformation, initial analysis and further predictive modeling. Data were extracted from FDA resources and supplemented from other publicly available databases. Currently, the database contains information regarding about 19,226 FDA approval applications for 31,815 products (small molecules and biologics) with their approval history, 2505 active ingredients, together with as many ADMET properties, 1629 molecular structures, 2.5 million adverse effects and 36,963 experimental drug-target bioactivity data. IDAAPM is a unique resource that, in a single relational database, provides detailed information on FDA approved drugs including their ADMET properties and adverse effects, the corresponding targets with bioactivity data, coupled with a data analytics platform. It can be used to perform basic to complex drug-target ADMET or adverse effects analysis and predictive modeling. IDAAPM is freely accessible at http://idaapm.helsinki.fi and can be exploited through a KNIME workflow connected to the database.Graphical abstractFDA approved drug data integration for predictive modeling.
Statistical modeling of occupational chlorinated solvent exposures for case–control studies using a literature-based database

PubMed Central

Hein, Misty J.; Waters, Martha A.; Ruder, Avima M.; Stenzel, Mark R.; Blair, Aaron; Stewart, Patricia A.

2010-01-01

Objectives: Occupational exposure assessment for population-based case–control studies is challenging due to the wide variety of industries and occupations encountered by study participants. We developed and evaluated statistical models to estimate the intensity of exposure to three chlorinated solvents—methylene chloride, 1,1,1-trichloroethane, and trichloroethylene—using a database of air measurement data and associated exposure determinants. Methods: A measurement database was developed after an extensive review of the published industrial hygiene literature. The database of nearly 3000 measurements or summary measurements included sample size, measurement characteristics (year, duration, and type), and several potential exposure determinants associated with the measurements: mechanism of release (e.g. evaporation), process condition, temperature, usage rate, type of ventilation, location, presence of a confined space, and proximity to the source. The natural log-transformed measurement levels in the exposure database were modeled as a function of the measurement characteristics and exposure determinants using maximum likelihood methods. Assuming a single lognormal distribution of the measurements, an arithmetic mean exposure intensity level was estimated for each unique combination of exposure determinants and decade. Results: The proportions of variability in the measurement data explained by the modeled measurement characteristics and exposure determinants were 36, 38, and 54% for methylene chloride, 1,1,1-trichloroethane, and trichloroethylene, respectively. Model parameter estimates for the exposure determinants were in the anticipated direction. Exposure intensity estimates were plausible and exhibited internal consistency, but the ability to evaluate validity was limited. Conclusions: These prediction models can be used to estimate chlorinated solvent exposure intensity for jobs reported by population-based case–control study participants that have sufficiently detailed information regarding the exposure determinants. PMID:20418277
Gestation-Specific Changes in the Anatomy and Physiology of Healthy Pregnant Women: An Extended Repository of Model Parameters for Physiologically Based Pharmacokinetic Modeling in Pregnancy.

PubMed

Dallmann, André; Ince, Ibrahim; Meyer, Michaela; Willmann, Stefan; Eissing, Thomas; Hempel, Georg

2017-11-01

In the past years, several repositories for anatomical and physiological parameters required for physiologically based pharmacokinetic modeling in pregnant women have been published. While providing a good basis, some important aspects can be further detailed. For example, they did not account for the variability associated with parameters or were lacking key parameters necessary for developing more detailed mechanistic pregnancy physiologically based pharmacokinetic models, such as the composition of pregnancy-specific tissues. The aim of this meta-analysis was to provide an updated and extended database of anatomical and physiological parameters in healthy pregnant women that also accounts for changes in the variability of a parameter throughout gestation and for the composition of pregnancy-specific tissues. A systematic literature search was carried out to collect study data on pregnancy-related changes of anatomical and physiological parameters. For each parameter, a set of mathematical functions was fitted to the data and to the standard deviation observed among the data. The best performing functions were selected based on numerical and visual diagnostics as well as based on physiological plausibility. The literature search yielded 473 studies, 302 of which met the criteria to be further analyzed and compiled in a database. In total, the database encompassed 7729 data. Although the availability of quantitative data for some parameters remained limited, mathematical functions could be generated for many important parameters. Gaps were filled based on qualitative knowledge and based on physiologically plausible assumptions. The presented results facilitate the integration of pregnancy-dependent changes in anatomy and physiology into mechanistic population physiologically based pharmacokinetic models. Such models can ultimately provide a valuable tool to investigate the pharmacokinetics during pregnancy in silico and support informed decision making regarding optimal dosing regimens in this vulnerable special population.
Detecting Spatial Patterns of Natural Hazards from the Wikipedia Knowledge Base

NASA Astrophysics Data System (ADS)

Fan, J.; Stewart, K.

2015-07-01

The Wikipedia database is a data source of immense richness and variety. Included in this database are thousands of geotagged articles, including, for example, almost real-time updates on current and historic natural hazards. This includes usercontributed information about the location of natural hazards, the extent of the disasters, and many details relating to response, impact, and recovery. In this research, a computational framework is proposed to detect spatial patterns of natural hazards from the Wikipedia database by combining topic modeling methods with spatial analysis techniques. The computation is performed on the Neon Cluster, a high performance-computing cluster at the University of Iowa. This work uses wildfires as the exemplar hazard, but this framework is easily generalizable to other types of hazards, such as hurricanes or flooding. Latent Dirichlet Allocation (LDA) modeling is first employed to train the entire English Wikipedia dump, transforming the database dump into a 500-dimension topic model. Over 230,000 geo-tagged articles are then extracted from the Wikipedia database, spatially covering the contiguous United States. The geo-tagged articles are converted into an LDA topic space based on the topic model, with each article being represented as a weighted multidimension topic vector. By treating each article's topic vector as an observed point in geographic space, a probability surface is calculated for each of the topics. In this work, Wikipedia articles about wildfires are extracted from the Wikipedia database, forming a wildfire corpus and creating a basis for the topic vector analysis. The spatial distribution of wildfire outbreaks in the US is estimated by calculating the weighted sum of the topic probability surfaces using a map algebra approach, and mapped using GIS. To provide an evaluation of the approach, the estimation is compared to wildfire hazard potential maps created by the USDA Forest service.
An Extended IEEE 118-Bus Test System With High Renewable Penetration

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pena, Ivonne; Martinez-Anido, Carlo Brancucci; Hodge, Bri-Mathias

This article describes a new publicly available version of the IEEE 118-bus test system, named NREL-118. The database is based on the transmission representation (buses and lines) of the IEEE 118-bus test system, with a reconfigured generation representation using three regions of the US Western Interconnection from the latest Western Electricity Coordination Council (WECC) 2024 Common Case [1]. Time-synchronous hourly load, wind, and solar time series are provided for over one year (8784 hours). The public database presented and described in this manuscript will allow researchers to model a test power system using detailed transmission, generation, load, wind, and solarmore » data. This database includes key additional features that add to the current IEEE 118-bus test model, such as: the inclusion of 10 generation technologies with different heat rate functions, minimum stable levels and ramping rates, GHG emissions rates, regulation and contingency reserves, and hourly time series data for one full year for load, wind and solar generation.« less
Remote collection and analysis of witness reports on flash floods

NASA Astrophysics Data System (ADS)

Gourley, Jonathan; Erlingis, Jessica; Smith, Travis; Ortega, Kiel; Hong, Yang

2010-05-01

Typically, flash floods are studied ex post facto in response to a major impact event. A complement to field investigations is developing a detailed database of flash flood events, including minor events and null reports (i.e., where heavy rain occurred but there was no flash flooding), based on public survey questions conducted in near-real time. The Severe Hazards Analysis and Verification Experiment (SHAVE) has been in operation at the National Severe Storms Laboratory (NSSL) in Norman, OK, USA during the summers since 2006. The experiment employs undergraduate students to analyse real-time products from weather radars, target specific regions within the conterminous US, and poll public residences and businesses regarding the occurrence and severity of hail, wind, tornadoes, and now flash floods. In addition to providing a rich learning experience for students, SHAVE has been successful in creating high-resolution datasets of severe hazards used for algorithm and model verification. This talk describes the criteria used to initiate the flash flood survey, the specific questions asked and information entered to the database, and then provides an analysis of results for flash flood data collected during the summer of 2008. It is envisioned that specific details provided by the SHAVE flash flood observation database will complement databases collected by operational agencies and thus lead to better tools to predict the likelihood of flash floods and ultimately reduce their impacts on society.
FReD: the floral reflectance database--a web portal for analyses of flower colour.

PubMed

Arnold, Sarah E J; Faruq, Samia; Savolainen, Vincent; McOwan, Peter W; Chittka, Lars

2010-12-10

Flower colour is of great importance in various fields relating to floral biology and pollinator behaviour. However, subjective human judgements of flower colour may be inaccurate and are irrelevant to the ecology and vision of the flower's pollinators. For precise, detailed information about the colours of flowers, a full reflectance spectrum for the flower of interest should be used rather than relying on such human assessments. The Floral Reflectance Database (FReD) has been developed to make an extensive collection of such data available to researchers. It is freely available at http://www.reflectance.co.uk. The database allows users to download spectral reflectance data for flower species collected from all over the world. These could, for example, be used in modelling interactions between pollinator vision and plant signals, or analyses of flower colours in various habitats. The database contains functions for calculating flower colour loci according to widely-used models of bee colour space, reflectance graphs of the spectra and an option to search for flowers with similar colours in bee colour space. The Floral Reflectance Database is a valuable new tool for researchers interested in the colours of flowers and their association with pollinator colour vision, containing raw spectral reflectance data for a large number of flower species.
Plant Reactome: a resource for plant pathways and comparative analysis.

PubMed

Naithani, Sushma; Preece, Justin; D'Eustachio, Peter; Gupta, Parul; Amarasinghe, Vindhya; Dharmawardhana, Palitha D; Wu, Guanming; Fabregat, Antonio; Elser, Justin L; Weiser, Joel; Keays, Maria; Fuentes, Alfonso Munoz-Pomer; Petryszak, Robert; Stein, Lincoln D; Ware, Doreen; Jaiswal, Pankaj

2017-01-04

Plant Reactome (http://plantreactome.gramene.org/) is a free, open-source, curated plant pathway database portal, provided as part of the Gramene project. The database provides intuitive bioinformatics tools for the visualization, analysis and interpretation of pathway knowledge to support genome annotation, genome analysis, modeling, systems biology, basic research and education. Plant Reactome employs the structural framework of a plant cell to show metabolic, transport, genetic, developmental and signaling pathways. We manually curate molecular details of pathways in these domains for reference species Oryza sativa (rice) supported by published literature and annotation of well-characterized genes. Two hundred twenty-two rice pathways, 1025 reactions associated with 1173 proteins, 907 small molecules and 256 literature references have been curated to date. These reference annotations were used to project pathways for 62 model, crop and evolutionarily significant plant species based on gene homology. Database users can search and browse various components of the database, visualize curated baseline expression of pathway-associated genes provided by the Expression Atlas and upload and analyze their Omics datasets. The database also offers data access via Application Programming Interfaces (APIs) and in various standardized pathway formats, such as SBML and BioPAX. © The Author(s) 2016. Published by Oxford University Press on behalf of Nucleic Acids Research.
Draft secure medical database standard.

PubMed

Pangalos, George

2002-01-01

Medical database security is a particularly important issue for all Healthcare establishments. Medical information systems are intended to support a wide range of pertinent health issues today, for example: assure the quality of care, support effective management of the health services institutions, monitor and contain the cost of care, implement technology into care without violating social values, ensure the equity and availability of care, preserve humanity despite the proliferation of technology etc.. In this context, medical database security aims primarily to support: high availability, accuracy and consistency of the stored data, the medical professional secrecy and confidentiality, and the protection of the privacy of the patient. These properties, though of technical nature, basically require that the system is actually helpful for medical care and not harmful to patients. These later properties require in turn not only that fundamental ethical principles are not violated by employing database systems, but instead, are effectively enforced by technical means. This document reviews the existing and emerging work on the security of medical database systems. It presents in detail the related problems and requirements related to medical database security. It addresses the problems of medical database security policies, secure design methodologies and implementation techniques. It also describes the current legal framework and regulatory requirements for medical database security. The issue of medical database security guidelines is also examined in detailed. The current national and international efforts in the area are studied. It also gives an overview of the research work in the area. The document also presents in detail the most complete to our knowledge set of security guidelines for the development and operation of medical database systems.
A general temporal data model and the structured population event history register

PubMed Central

Clark, Samuel J.

2010-01-01

At this time there are 37 demographic surveillance system sites active in sub-Saharan Africa, Asia and Central America, and this number is growing continuously. These sites and other longitudinal population and health research projects generate large quantities of complex temporal data in order to describe, explain and investigate the event histories of individuals and the populations they constitute. This article presents possible solutions to some of the key data management challenges associated with those data. The fundamental components of a temporal system are identified and both they and their relationships to each other are given simple, standardized definitions. Further, a metadata framework is proposed to endow this abstract generalization with specific meaning and to bind the definitions of the data to the data themselves. The result is a temporal data model that is generalized, conceptually tractable, and inherently contains a full description of the primary data it organizes. Individual databases utilizing this temporal data model can be customized to suit the needs of their operators without modifying the underlying design of the database or sacrificing the potential to transparently share compatible subsets of their data with other similar databases. A practical working relational database design based on this general temporal data model is presented and demonstrated. This work has arisen out of experience with demographic surveillance in the developing world, and although the challenges and their solutions are more general, the discussion is organized around applications in demographic surveillance. An appendix contains detailed examples and working prototype databases that implement the examples discussed in the text. PMID:20396614

Comprehensive European dietary exposure model (CEDEM) for food additives.

PubMed

Tennant, David R

2016-05-01

European methods for assessing dietary exposures to nutrients, additives and other substances in food are limited by the availability of detailed food consumption data for all member states. A proposed comprehensive European dietary exposure model (CEDEM) applies summary data published by the European Food Safety Authority (EFSA) in a deterministic model based on an algorithm from the EFSA intake method for food additives. The proposed approach can predict estimates of food additive exposure provided in previous EFSA scientific opinions that were based on the full European food consumption database.
Understanding youthful risk taking and driving : database report

DOT National Transportation Integrated Search

1995-11-01

This report catalogs national databases that contain information about adolescents and risk taking behaviors. It contains descriptions of the major areas, unique characteristics, and risk-related aspects of each database. Detailed information is prov...
Understanding Youthful Risk Taking and Driving: Database Report

DOT National Transportation Integrated Search

1995-11-01

This report catalogs national databases that contain information about adolescents and risk taking behaviors. It contains descriptions of the major areas, unique characteristics, and risk-related aspects of each database. Detailed information is prov...
Diet History Questionnaire: Database Revision History

Cancer.gov

The following details all additions and revisions made to the DHQ nutrient and food database. This revision history is provided as a reference for investigators who may have performed analyses with a previous release of the database.
Security in the CernVM File System and the Frontier Distributed Database Caching System

NASA Astrophysics Data System (ADS)

Dykstra, D.; Blomer, J.

2014-06-01

Both the CernVM File System (CVMFS) and the Frontier Distributed Database Caching System (Frontier) distribute centrally updated data worldwide for LHC experiments using http proxy caches. Neither system provides privacy or access control on reading the data, but both control access to updates of the data and can guarantee the authenticity and integrity of the data transferred to clients over the internet. CVMFS has since its early days required digital signatures and secure hashes on all distributed data, and recently Frontier has added X.509-based authenticity and integrity checking. In this paper we detail and compare the security models of CVMFS and Frontier.
ProBiS tools (algorithm, database, and web servers) for predicting and modeling of biologically interesting proteins.

PubMed

Konc, Janez; Janežič, Dušanka

2017-09-01

ProBiS (Protein Binding Sites) Tools consist of algorithm, database, and web servers for prediction of binding sites and protein ligands based on the detection of structurally similar binding sites in the Protein Data Bank. In this article, we review the operations that ProBiS Tools perform, provide comments on the evolution of the tools, and give some implementation details. We review some of its applications to biologically interesting proteins. ProBiS Tools are freely available at http://probis.cmm.ki.si and http://probis.nih.gov. Copyright © 2017 Elsevier Ltd. All rights reserved.
MMpI: A WideRange of Available Compounds of Matrix Metalloproteinase Inhibitors

PubMed Central

Muvva, Charuvaka; Patra, Sanjukta; Venkatesan, Subramanian

2016-01-01

Matrix metalloproteinases (MMPs) are a family of zinc-dependent proteinases involved in the regulation of the extracellular signaling and structural matrix environment of cells and tissues. MMPs are considered as promising targets for the treatment of many diseases. Therefore, creation of database on the inhibitors of MMP would definitely accelerate the research activities in this area due to its implication in above-mentioned diseases and associated limitations in the first and second generation inhibitors. In this communication, we report the development of a new MMpI database which provides resourceful information for all researchers working in this field. It is a web-accessible, unique resource that contains detailed information on the inhibitors of MMP including small molecules, peptides and MMP Drug Leads. The database contains entries of ~3000 inhibitors including ~72 MMP Drug Leads and ~73 peptide based inhibitors. This database provides the detailed molecular and structural details which are necessary for the drug discovery and development. The MMpI database contains physical properties, 2D and 3D structures (mol2 and pdb format files) of inhibitors of MMP. Other data fields are hyperlinked to PubChem, ChEMBL, BindingDB, DrugBank, PDB, MEROPS and PubMed. The database has extensive searching facility with MMpI ID, IUPAC name, chemical structure and with the title of research article. The MMP inhibitors provided in MMpI database are optimized using Python-based Hierarchical Environment for Integrated Xtallography (Phenix) software. MMpI Database is unique and it is the only public database that contains and provides the complete information on the inhibitors of MMP. Database URL: http://clri.res.in/subramanian/databases/mmpi/index.php. PMID:27509041
Creating a FIESTA (Framework for Integrated Earth Science and Technology Applications) with MagIC

NASA Astrophysics Data System (ADS)

Minnett, R.; Koppers, A. A. P.; Jarboe, N.; Tauxe, L.; Constable, C.

2017-12-01

The Magnetics Information Consortium (https://earthref.org/MagIC) has recently developed a containerized web application to considerably reduce the friction in contributing, exploring and combining valuable and complex datasets for the paleo-, geo- and rock magnetic scientific community. The data produced in this scientific domain are inherently hierarchical and the communities evolving approaches to this scientific workflow, from sampling to taking measurements to multiple levels of interpretations, require a large and flexible data model to adequately annotate the results and ensure reproducibility. Historically, contributing such detail in a consistent format has been prohibitively time consuming and often resulted in only publishing the highly derived interpretations. The new open-source (https://github.com/earthref/MagIC) application provides a flexible upload tool integrated with the data model to easily create a validated contribution and a powerful search interface for discovering datasets and combining them to enable transformative science. MagIC is hosted at EarthRef.org along with several interdisciplinary geoscience databases. A FIESTA (Framework for Integrated Earth Science and Technology Applications) is being created by generalizing MagIC's web application for reuse in other domains. The application relies on a single configuration document that describes the routing, data model, component settings and external services integrations. The container hosts an isomorphic Meteor JavaScript application, MongoDB database and ElasticSearch search engine. Multiple containers can be configured as microservices to serve portions of the application or rely on externally hosted MongoDB, ElasticSearch, or third-party services to efficiently scale computational demands. FIESTA is particularly well suited for many Earth Science disciplines with its flexible data model, mapping, account management, upload tool to private workspaces, reference metadata, image galleries, full text searches and detailed filters. EarthRef's Seamount Catalog of bathymetry and morphology data, EarthRef's Geochemical Earth Reference Model (GERM) databases, and Oregon State University's Marine and Geology Repository (http://osu-mgr.org) will benefit from custom adaptations of FIESTA.
A Bayesian network approach to the database search problem in criminal proceedings

PubMed Central

2012-01-01

Background The ‘database search problem’, that is, the strengthening of a case - in terms of probative value - against an individual who is found as a result of a database search, has been approached during the last two decades with substantial mathematical analyses, accompanied by lively debate and centrally opposing conclusions. This represents a challenging obstacle in teaching but also hinders a balanced and coherent discussion of the topic within the wider scientific and legal community. This paper revisits and tracks the associated mathematical analyses in terms of Bayesian networks. Their derivation and discussion for capturing probabilistic arguments that explain the database search problem are outlined in detail. The resulting Bayesian networks offer a distinct view on the main debated issues, along with further clarity. Methods As a general framework for representing and analyzing formal arguments in probabilistic reasoning about uncertain target propositions (that is, whether or not a given individual is the source of a crime stain), this paper relies on graphical probability models, in particular, Bayesian networks. This graphical probability modeling approach is used to capture, within a single model, a series of key variables, such as the number of individuals in a database, the size of the population of potential crime stain sources, and the rarity of the corresponding analytical characteristics in a relevant population. Results This paper demonstrates the feasibility of deriving Bayesian network structures for analyzing, representing, and tracking the database search problem. The output of the proposed models can be shown to agree with existing but exclusively formulaic approaches. Conclusions The proposed Bayesian networks allow one to capture and analyze the currently most well-supported but reputedly counter-intuitive and difficult solution to the database search problem in a way that goes beyond the traditional, purely formulaic expressions. The method’s graphical environment, along with its computational and probabilistic architectures, represents a rich package that offers analysts and discussants with additional modes of interaction, concise representation, and coherent communication. PMID:22849390
SAbDab: the structural antibody database

PubMed Central

Dunbar, James; Krawczyk, Konrad; Leem, Jinwoo; Baker, Terry; Fuchs, Angelika; Georges, Guy; Shi, Jiye; Deane, Charlotte M.

2014-01-01

Structural antibody database (SAbDab; http://opig.stats.ox.ac.uk/webapps/sabdab) is an online resource containing all the publicly available antibody structures annotated and presented in a consistent fashion. The data are annotated with several properties including experimental information, gene details, correct heavy and light chain pairings, antigen details and, where available, antibody–antigen binding affinity. The user can select structures, according to these attributes as well as structural properties such as complementarity determining region loop conformation and variable domain orientation. Individual structures, datasets and the complete database can be downloaded. PMID:24214988
Grid2: A Program for Rapid Estimation of the Jovian Radiation Environment: A Numeric Implementation of the GIRE2 Jovian Radiation Model for Estimating Trapped Radiation for Mission Concept Studies

NASA Technical Reports Server (NTRS)

Evans, R. W.; Brinza, D. E.

2014-01-01

Grid2 is a program that utilizes the Galileo Interim Radiation Electron model 2 (GIRE2) Jovian radiation model to compute fluences and doses for Jupiter missions. (Note: The iterations of these two softwares have been GIRE and GIRE2; likewise Grid and Grid2.) While GIRE2 is an important improvement over the original GIRE radiation model, the GIRE2 model can take as long as a day or more to compute these quantities for a complete mission. Grid2 fits the results of the detailed GIRE2 code with a set of grids in local time and position thereby greatly speeding up the execution of the model--minutes as opposed to days. The Grid2 model covers the time period from 1971 to 2050and distances of 1.03 to 30 Jovian diameters (Rj). It is available as a direct-access database through a FORTRAN interface program. The new database is only slightly larger than the original grid version: 1.5 gigabytes (GB) versus 1.2 GB.
Big data in healthcare - the promises, challenges and opportunities from a research perspective: A case study with a model database.

PubMed

Adibuzzaman, Mohammad; DeLaurentis, Poching; Hill, Jennifer; Benneyworth, Brian D

2017-01-01

Recent advances in data collection during routine health care in the form of Electronic Health Records (EHR), medical device data (e.g., infusion pump informatics, physiological monitoring data, and insurance claims data, among others, as well as biological and experimental data, have created tremendous opportunities for biological discoveries for clinical application. However, even with all the advancement in technologies and their promises for discoveries, very few research findings have been translated to clinical knowledge, or more importantly, to clinical practice. In this paper, we identify and present the initial work addressing the relevant challenges in three broad categories: data, accessibility, and translation. These issues are discussed in the context of a widely used detailed database from an intensive care unit, Medical Information Mart for Intensive Care (MIMIC III) database.
Quantifying Astronaut Tasks: Robotic Technology and Future Space Suit Design

NASA Technical Reports Server (NTRS)

Newman, Dava

2003-01-01

The primary aim of this research effort was to advance the current understanding of astronauts' capabilities and limitations in space-suited EVA by developing models of the constitutive and compatibility relations of a space suit, based on experimental data gained from human test subjects as well as a 12 degree-of-freedom human-sized robot, and utilizing these fundamental relations to estimate a human factors performance metric for space suited EVA work. The three specific objectives are to: 1) Compile a detailed database of torques required to bend the joints of a space suit, using realistic, multi- joint human motions. 2) Develop a mathematical model of the constitutive relations between space suit joint torques and joint angular positions, based on experimental data and compare other investigators' physics-based models to experimental data. 3) Estimate the work envelope of a space suited astronaut, using the constitutive and compatibility relations of the space suit. The body of work that makes up this report includes experimentation, empirical and physics-based modeling, and model applications. A detailed space suit joint torque-angle database was compiled with a novel experimental approach that used space-suited human test subjects to generate realistic, multi-joint motions and an instrumented robot to measure the torques required to accomplish these motions in a space suit. Based on the experimental data, a mathematical model is developed to predict joint torque from the joint angle history. Two physics-based models of pressurized fabric cylinder bending are compared to experimental data, yielding design insights. The mathematical model is applied to EVA operations in an inverse kinematic analysis coupled to the space suit model to calculate the volume in which space-suited astronauts can work with their hands, demonstrating that operational human factors metrics can be predicted from fundamental space suit information.
Process-based modeling of species' responses to climate change - a proof of concept using western North American trees

NASA Astrophysics Data System (ADS)

Evans, M. E.; Merow, C.; Record, S.; Menlove, J.; Gray, A.; Cundiff, J.; McMahon, S.; Enquist, B. J.

2013-12-01

Current attempts to forecast how species' distributions will change in response to climate change suffer under a fundamental trade-off: between modeling many species superficially vs. few species in detail (between correlative vs. mechanistic models). The goals of this talk are two-fold: first, we present a Bayesian multilevel modeling framework, dynamic range modeling (DRM), for building process-based forecasts of many species' distributions at a time, designed to address the trade-off between detail and number of distribution forecasts. In contrast to 'species distribution modeling' or 'niche modeling', which uses only species' occurrence data and environmental data, DRMs draw upon demographic data, abundance data, trait data, occurrence data, and GIS layers of climate in a single framework to account for two processes known to influence range dynamics - demography and dispersal. The vision is to use extensive databases on plant demography, distributions, and traits - in the Botanical Information and Ecology Network, the Forest Inventory and Analysis database (FIA), and the International Tree Ring Data Bank - to develop DRMs for North American trees. Second, we present preliminary results from building the core submodel of a DRM - an integral projection model (IPM) - for a sample of dominant tree species in western North America. IPMs are used to infer demographic niches - i.e., the set of environmental conditions under which population growth rate is positive - and project population dynamics through time. Based on >550,000 data points derived from FIA for nine tree species in western North America, we show IPM-based models of their current and future distributions, and discuss how IPMs can be used to forecast future forest productivity, mortality patterns, and inform efforts at assisted migration.
A Summary of Pavement and Material-Related Databases within the Texas Department of Transportation

DOT National Transportation Integrated Search

1999-09-01

This report summarizes important content and operational details about five different materials and pavement databases currently used by the Texas Department of Transportation (TxDOT). These databases include the Pavement Management Information Syste...
A database of the coseismic effects following the 30 October 2016 Norcia earthquake in Central Italy

PubMed Central

Villani, Fabio; Civico, Riccardo; Pucci, Stefano; Pizzimenti, Luca; Nappi, Rosa; De Martini, Paolo Marco; Villani, Fabio; Civico, Riccardo; Pucci, Stefano; Pizzimenti, Luca; Nappi, Rosa; De Martini, Paolo Marco; Agosta, F.; Alessio, G.; Alfonsi, L.; Amanti, M.; Amoroso, S.; Aringoli, D.; Auciello, E.; Azzaro, R.; Baize, S.; Bello, S.; Benedetti, L.; Bertagnini, A.; Binda, G.; Bisson, M.; Blumetti, A.M.; Bonadeo, L.; Boncio, P.; Bornemann, P.; Branca, S.; Braun, T.; Brozzetti, F.; Brunori, C.A.; Burrato, P.; Caciagli, M.; Campobasso, C.; Carafa, M.; Cinti, F.R.; Cirillo, D.; Comerci, V.; Cucci, L.; De Ritis, R.; Deiana, G.; Del Carlo, P.; Del Rio, L.; Delorme, A.; Di Manna, P.; Di Naccio, D.; Falconi, L.; Falcucci, E.; Farabollini, P.; Faure Walker, J.P.; Ferrarini, F.; Ferrario, M.F.; Ferry, M.; Feuillet, N.; Fleury, J.; Fracassi, U.; Frigerio, C.; Galluzzo, F.; Gambillara, R.; Gaudiosi, G.; Goodall, H.; Gori, S.; Gregory, L.C.; Guerrieri, L.; Hailemikael, S.; Hollingsworth, J.; Iezzi, F.; Invernizzi, C.; Jablonská, D.; Jacques, E.; Jomard, H.; Kastelic, V.; Klinger, Y.; Lavecchia, G.; Leclerc, F.; Liberi, F.; Lisi, A.; Livio, F.; Lo Sardo, L.; Malet, J.P.; Mariucci, M.T.; Materazzi, M.; Maubant, L.; Mazzarini, F.; McCaffrey, K.J.W.; Michetti, A.M.; Mildon, Z.K.; Montone, P.; Moro, M.; Nave, R.; Odin, M.; Pace, B.; Paggi, S.; Pagliuca, N.; Pambianchi, G.; Pantosti, D.; Patera, A.; Pérouse, E.; Pezzo, G.; Piccardi, L.; Pierantoni, P.P.; Pignone, M.; Pinzi, S.; Pistolesi, E.; Point, J.; Pousse, L.; Pozzi, A.; Proposito, M.; Puglisi, C.; Puliti, I.; Ricci, T.; Ripamonti, L.; Rizza, M.; Roberts, G.P.; Roncoroni, M.; Sapia, V.; Saroli, M.; Sciarra, A.; Scotti, O.; Skupinski, G.; Smedile, A.; Soquet, A.; Tarabusi, G.; Tarquini, S.; Terrana, S.; Tesson, J.; Tondi, E.; Valentini, A.; Vallone, R.; Van der Woerd, J.; Vannoli, P.; Venuti, A.; Vittori, E.; Volatili, T.; Wedmore, L.N.J.; Wilkinson, M.; Zambrano, M.

2018-01-01

We provide a database of the coseismic geological surface effects following the Mw 6.5 Norcia earthquake that hit central Italy on 30 October 2016. This was one of the strongest seismic events to occur in Europe in the past thirty years, causing complex surface ruptures over an area of >400 km2. The database originated from the collaboration of several European teams (Open EMERGEO Working Group; about 130 researchers) coordinated by the Istituto Nazionale di Geofisica e Vulcanologia. The observations were collected by performing detailed field surveys in the epicentral region in order to describe the geometry and kinematics of surface faulting, and subsequently of landslides and other secondary coseismic effects. The resulting database consists of homogeneous georeferenced records identifying 7323 observation points, each of which contains 18 numeric and string fields of relevant information. This database will impact future earthquake studies focused on modelling of the seismic processes in active extensional settings, updating probabilistic estimates of slip distribution, and assessing the hazard of surface faulting. PMID:29583143
A database of the coseismic effects following the 30 October 2016 Norcia earthquake in Central Italy.

PubMed

Villani, Fabio; Civico, Riccardo; Pucci, Stefano; Pizzimenti, Luca; Nappi, Rosa; De Martini, Paolo Marco

2018-03-27

We provide a database of the coseismic geological surface effects following the Mw 6.5 Norcia earthquake that hit central Italy on 30 October 2016. This was one of the strongest seismic events to occur in Europe in the past thirty years, causing complex surface ruptures over an area of >400 km 2 . The database originated from the collaboration of several European teams (Open EMERGEO Working Group; about 130 researchers) coordinated by the Istituto Nazionale di Geofisica e Vulcanologia. The observations were collected by performing detailed field surveys in the epicentral region in order to describe the geometry and kinematics of surface faulting, and subsequently of landslides and other secondary coseismic effects. The resulting database consists of homogeneous georeferenced records identifying 7323 observation points, each of which contains 18 numeric and string fields of relevant information. This database will impact future earthquake studies focused on modelling of the seismic processes in active extensional settings, updating probabilistic estimates of slip distribution, and assessing the hazard of surface faulting.
A database of the coseismic effects following the 30 October 2016 Norcia earthquake in Central Italy

NASA Astrophysics Data System (ADS)

Villani, Fabio; Civico, Riccardo; Pucci, Stefano; Pizzimenti, Luca; Nappi, Rosa; de Martini, Paolo Marco; Villani, Fabio; Civico, Riccardo; Pucci, Stefano; Pizzimenti, Luca; Nappi, Rosa; de Martini, Paolo Marco; Agosta, F.; Alessio, G.; Alfonsi, L.; Amanti, M.; Amoroso, S.; Aringoli, D.; Auciello, E.; Azzaro, R.; Baize, S.; Bello, S.; Benedetti, L.; Bertagnini, A.; Binda, G.; Bisson, M.; Blumetti, A. M.; Bonadeo, L.; Boncio, P.; Bornemann, P.; Branca, S.; Braun, T.; Brozzetti, F.; Brunori, C. A.; Burrato, P.; Caciagli, M.; Campobasso, C.; Carafa, M.; Cinti, F. R.; Cirillo, D.; Comerci, V.; Cucci, L.; de Ritis, R.; Deiana, G.; Del Carlo, P.; Del Rio, L.; Delorme, A.; di Manna, P.; di Naccio, D.; Falconi, L.; Falcucci, E.; Farabollini, P.; Faure Walker, J. P.; Ferrarini, F.; Ferrario, M. F.; Ferry, M.; Feuillet, N.; Fleury, J.; Fracassi, U.; Frigerio, C.; Galluzzo, F.; Gambillara, R.; Gaudiosi, G.; Goodall, H.; Gori, S.; Gregory, L. C.; Guerrieri, L.; Hailemikael, S.; Hollingsworth, J.; Iezzi, F.; Invernizzi, C.; Jablonská, D.; Jacques, E.; Jomard, H.; Kastelic, V.; Klinger, Y.; Lavecchia, G.; Leclerc, F.; Liberi, F.; Lisi, A.; Livio, F.; Lo Sardo, L.; Malet, J. P.; Mariucci, M. T.; Materazzi, M.; Maubant, L.; Mazzarini, F.; McCaffrey, K. J. W.; Michetti, A. M.; Mildon, Z. K.; Montone, P.; Moro, M.; Nave, R.; Odin, M.; Pace, B.; Paggi, S.; Pagliuca, N.; Pambianchi, G.; Pantosti, D.; Patera, A.; Pérouse, E.; Pezzo, G.; Piccardi, L.; Pierantoni, P. P.; Pignone, M.; Pinzi, S.; Pistolesi, E.; Point, J.; Pousse, L.; Pozzi, A.; Proposito, M.; Puglisi, C.; Puliti, I.; Ricci, T.; Ripamonti, L.; Rizza, M.; Roberts, G. P.; Roncoroni, M.; Sapia, V.; Saroli, M.; Sciarra, A.; Scotti, O.; Skupinski, G.; Smedile, A.; Soquet, A.; Tarabusi, G.; Tarquini, S.; Terrana, S.; Tesson, J.; Tondi, E.; Valentini, A.; Vallone, R.; van der Woerd, J.; Vannoli, P.; Venuti, A.; Vittori, E.; Volatili, T.; Wedmore, L. N. J.; Wilkinson, M.; Zambrano, M.

2018-03-01

We provide a database of the coseismic geological surface effects following the Mw 6.5 Norcia earthquake that hit central Italy on 30 October 2016. This was one of the strongest seismic events to occur in Europe in the past thirty years, causing complex surface ruptures over an area of >400 km2. The database originated from the collaboration of several European teams (Open EMERGEO Working Group; about 130 researchers) coordinated by the Istituto Nazionale di Geofisica e Vulcanologia. The observations were collected by performing detailed field surveys in the epicentral region in order to describe the geometry and kinematics of surface faulting, and subsequently of landslides and other secondary coseismic effects. The resulting database consists of homogeneous georeferenced records identifying 7323 observation points, each of which contains 18 numeric and string fields of relevant information. This database will impact future earthquake studies focused on modelling of the seismic processes in active extensional settings, updating probabilistic estimates of slip distribution, and assessing the hazard of surface faulting.
Evolution, Nucleosynthesis, and Yields of Low-mass Asymptotic Giant Branch Stars at Different Metallicities. II. The FRUITY Database

NASA Astrophysics Data System (ADS)

Cristallo, S.; Piersanti, L.; Straniero, O.; Gallino, R.; Domínguez, I.; Abia, C.; Di Rico, G.; Quintini, M.; Bisterzo, S.

2011-12-01

By using updated stellar low-mass stars models, we systematically investigate the nucleosynthesis processes occurring in asymptotic giant branch (AGB) stars. In this paper, we present a database dedicated to the nucleosynthesis of AGB stars: FRANEC Repository of Updated Isotopic Tables & Yields (FRUITY). An interactive Web-based interface allows users to freely download the full (from H to Bi) isotopic composition, as it changes after each third dredge-up (TDU) episode and the stellar yields the models produce. A first set of AGB models, having masses in the range 1.5 <=M/M ⊙ <= 3.0 and metallicities 1 × 10-3 <= Z <= 2 × 10-2, is discussed. For each model, a detailed description of the physical and the chemical evolution is provided. In particular, we illustrate the details of the s-process and we evaluate the theoretical uncertainties due to the parameterization adopted to model convection and mass loss. The resulting nucleosynthesis scenario is checked by comparing the theoretical [hs/ls] and [Pb/hs] ratios to those obtained from the available abundance analysis of s-enhanced stars. On the average, the variation with the metallicity of these spectroscopic indexes is well reproduced by theoretical models, although the predicted spread at a given metallicity is substantially smaller than the observed one. Possible explanations for such a difference are briefly discussed. An independent check of the TDU efficiency is provided by the C-stars luminosity function. Consequently, theoretical C-stars luminosity functions for the Galactic disk and the Magellanic Clouds have been derived. We generally find good agreement with observations.
Development of a global land cover characteristics database and IGBP DISCover from 1 km AVHRR data

USGS Publications Warehouse

Loveland, Thomas R.; Reed, B.C.; Brown, Jesslyn F.; Ohlen, D.O.; Zhu, Z.; Yang, L.; Merchant, J.W.

2000-01-01

Researchers from the U.S. Geological Survey, University of Nebraska-Lincoln and the European Commission's Joint Research Centre, Ispra, Italy produced a 1 km resolution global land cover characteristics database for use in a wide range of continental-to global-scale environmental studies. This database provides a unique view of the broad patterns of the biogeographical and ecoclimatic diversity of the global land surface, and presents a detailed interpretation of the extent of human development. The project was carried out as an International Geosphere-Biosphere Programme, Data and Information Systems (IGBP-DIS) initiative. The IGBP DISCover global land cover product is an integral component of the global land cover database. DISCover includes 17 general land cover classes defined to meet the needs of IGBP core science projects. A formal accuracy assessment of the DISCover data layer will be completed in 1998. The 1 km global land cover database was developed through a continent-by-continent unsupervised classification of 1 km monthly Advanced Very High Resolution Radiometer (AVHRR) Normalized Difference Vegetation Index (NDVI) composites covering 1992-1993. Extensive post-classification stratification was necessary to resolve spectral/temporal confusion between disparate land cover types. The complete global database consists of 961 seasonal land cover regions that capture patterns of land cover, seasonality and relative primary productivity. The seasonal land cover regions were aggregated to produce seven separate land cover data sets used for global environmental modelling and assessment. The data sets include IGBP DISCover, U.S. Geological Survey Anderson System, Simple Biosphere Model, Simple Biosphere Model 2, Biosphere-Atmosphere Transfer Scheme, Olson Ecosystems and Running Global Remote Sensing Land Cover. The database also includes all digital sources that were used in the classification. The complete database can be sourced from the website: http://edcwww.cr.usgs.gov/landdaac/glcc/glcc.html.

Sensitivity Tests Between Vs30 and Detailed Shear Wave Profiles Using 1D and 3D Site Response Analysis, Las Vegas Valley

NASA Astrophysics Data System (ADS)

West, Loyd Travis

Site characterization is an essential aspect of hazard analysis and the time-averaged shear-wave velocity to 30 m depth "Vs30" for site-class has become a critical parameter in site-specific and probabilistic hazard analysis. Yet, the general applicability of Vs30 can be ambiguous and much debate and research surround its application. In 2007, in part to mitigate the uncertainty associated with the use of Vs30 in Las Vegas Valley, the Clark County Building Department (CCBD) in collaboration with the Nevada System of Higher Education (NSHE) embarked on an endeavor to map Vs30 using a geophysical methods approach for a site-class microzonation map of over 500 square miles (1500 km2) in southern Nevada. The resulting dataset, described by Pancha et al. (2017), contains over 10,700 1D shear-wave-velocity-depth profiles (SWVP) that constitute a rich database of 3D shear-wave velocity structure that is both laterally and vertical heterogenous. This study capitalizes on the uniquely detailed and spatially dense CCBD database to carry out sensitivity tests on the detailed shear-wave-velocity-profiles and the Vs30 utilizing 1D and 3D site-response approaches. Sensitivity tests are derived from the 1D oscillator response of a single-degree-of-freedom-oscillator and from 3D finite-difference deterministic simulations up to 15 Hz frequency using similar model parameters. Results demonstrate that the detailed SWVP are amplifying ground motions by roughly 50% over the simple Vs30 models, above 4.6 Hz frequency. Numerical simulations also depict significant lateral resonance, focusing, and scattering from seismic energy attributed to the 3D small-scale heterogeneities of the shear-wave-velocity profiles that result in a 70% increase in peak ground velocity. Additionally, PGV ratio maps clearly establish that the increased amplification from the detailed SWVPs is consistent throughout the model space. As a corollary, this study demonstrates the use of finite-differencing numerical based methods to simulate ground motions at high frequencies, up to 15 Hz.
DDRprot: a database of DNA damage response-related proteins.

PubMed

Andrés-León, Eduardo; Cases, Ildefonso; Arcas, Aida; Rojas, Ana M

2016-01-01

The DNA Damage Response (DDR) signalling network is an essential system that protects the genome's integrity. The DDRprot database presented here is a resource that integrates manually curated information on the human DDR network and its sub-pathways. For each particular DDR protein, we present detailed information about its function. If involved in post-translational modifications (PTMs) with each other, we depict the position of the modified residue/s in the three-dimensional structures, when resolved structures are available for the proteins. All this information is linked to the original publication from where it was obtained. Phylogenetic information is also shown, including time of emergence and conservation across 47 selected species, family trees and sequence alignments of homologues. The DDRprot database can be queried by different criteria: pathways, species, evolutionary age or involvement in (PTM). Sequence searches using hidden Markov models can be also used.Database URL: http://ddr.cbbio.es. © The Author(s) 2016. Published by Oxford University Press.
EcoCyc: a comprehensive database resource for Escherichia coli

PubMed Central

Keseler, Ingrid M.; Collado-Vides, Julio; Gama-Castro, Socorro; Ingraham, John; Paley, Suzanne; Paulsen, Ian T.; Peralta-Gil, Martín; Karp, Peter D.

2005-01-01

The EcoCyc database (http://EcoCyc.org/) is a comprehensive source of information on the biology of the prototypical model organism Escherichia coli K12. The mission for EcoCyc is to contain both computable descriptions of, and detailed comments describing, all genes, proteins, pathways and molecular interactions in E.coli. Through ongoing manual curation, extensive information such as summary comments, regulatory information, literature citations and evidence types has been extracted from 8862 publications and added to Version 8.5 of the EcoCyc database. The EcoCyc database can be accessed through a World Wide Web interface, while the downloadable Pathway Tools software and data files enable computational exploration of the data and provide enhanced querying capabilities that web interfaces cannot support. For example, EcoCyc contains carefully curated information that can be used as training sets for bioinformatics prediction of entities such as promoters, operons, genetic networks, transcription factor binding sites, metabolic pathways, functionally related genes, protein complexes and protein–ligand interactions. PMID:15608210
An X-Ray Analysis Database of Photoionization Cross Sections Including Variable Ionization

NASA Technical Reports Server (NTRS)

Wang, Ping; Cohen, David H.; MacFarlane, Joseph J.; Cassinelli, Joseph P.

1997-01-01

Results of research efforts in the following areas are discussed: review of the major theoretical and experimental data of subshell photoionization cross sections and ionization edges of atomic ions to assess the accuracy of the data, and to compile the most reliable of these data in our own database; detailed atomic physics calculations to complement the database for all ions of 17 cosmically abundant elements; reconciling the data from various sources and our own calculations; and fitting cross sections with functional approximations and incorporating these functions into a compact computer code.Also, efforts included adapting an ionization equilibrium code, tabulating results, and incorporating them into the overall program and testing the code (both ionization equilibrium and opacity codes) with existing observational data. The background and scientific applications of this work are discussed. Atomic physics cross section models and calculations are described. Calculation results are compared with available experimental data and other theoretical data. The functional approximations used for fitting cross sections are outlined and applications of the database are discussed.
An object model and database for functional genomics.

PubMed

Jones, Andrew; Hunt, Ela; Wastling, Jonathan M; Pizarro, Angel; Stoeckert, Christian J

2004-07-10

Large-scale functional genomics analysis is now feasible and presents significant challenges in data analysis, storage and querying. Data standards are required to enable the development of public data repositories and to improve data sharing. There is an established data format for microarrays (microarray gene expression markup language, MAGE-ML) and a draft standard for proteomics (PEDRo). We believe that all types of functional genomics experiments should be annotated in a consistent manner, and we hope to open up new ways of comparing multiple datasets used in functional genomics. We have created a functional genomics experiment object model (FGE-OM), developed from the microarray model, MAGE-OM and two models for proteomics, PEDRo and our own model (Gla-PSI-Glasgow Proposal for the Proteomics Standards Initiative). FGE-OM comprises three namespaces representing (i) the parts of the model common to all functional genomics experiments; (ii) microarray-specific components; and (iii) proteomics-specific components. We believe that FGE-OM should initiate discussion about the contents and structure of the next version of MAGE and the future of proteomics standards. A prototype database called RNA And Protein Abundance Database (RAPAD), based on FGE-OM, has been implemented and populated with data from microbial pathogenesis. FGE-OM and the RAPAD schema are available from http://www.gusdb.org/fge.html, along with a set of more detailed diagrams. RAPAD can be accessed by registration at the site.
The China Plant Trait Database: toward a comprehensive regional compilation of functional traits for land plants.

PubMed

Wang, Han; Harrison, Sandy P; Prentice, Iain C; Yang, Yanzheng; Bai, Fan; Togashi, Henrique F; Wang, Meng; Zhou, Shuangxi; Ni, Jian

2018-02-01

Plant functional traits provide information about adaptations to climate and environmental conditions, and can be used to explore the existence of alternative plant strategies within ecosystems. Trait data are also increasingly being used to provide parameter estimates for vegetation models. Here we present a new database of plant functional traits from China. Most global climate and vegetation types can be found in China, and thus the database is relevant for global modeling. The China Plant Trait Database contains information on morphometric, physical, chemical, and photosynthetic traits from 122 sites spanning the range from boreal to tropical, and from deserts and steppes through woodlands and forests, including montane vegetation. Data collection at each site was based either on sampling the dominant species or on a stratified sampling of each ecosystem layer. The database contains information on 1,215 unique species, though many species have been sampled at multiple sites. The original field identifications have been taxonomically standardized to the Flora of China. Similarly, derived photosynthetic traits, such as electron-transport and carboxylation capacities, were calculated using a standardized method. To facilitate trait-environment analyses, the database also contains detailed climate and vegetation information for each site. The data set is released under a Creative Commons BY license. When using the data set, we kindly request that you cite this article, recognizing the hard work that went into collecting the data and the authors' willingness to make it publicly available. © 2017 by the Ecological Society of America.
77 FR 39269 - Submission for OMB Review, Comment Request, Proposed Collection: IMLS Museum Web Database...

Federal Register 2010, 2011, 2012, 2013, 2014

2012-07-02

..., Proposed Collection: IMLS Museum Web Database: MuseumsCount.gov AGENCY: Institute of Museum and Library... general public. Information such as name, address, phone, email, Web site, staff size, program details... Museum Web Database: MuseumsCount.gov collection. The 60-day notice for the IMLS Museum Web Database...
Remote collection and analysis of witness reports on flash floods

NASA Astrophysics Data System (ADS)

Gourley, J. J.; Erlingis, J. M.; Smith, T. M.; Ortega, K. L.; Hong, Y.

2010-11-01

SummaryTypically, flash floods are studied ex post facto in response to a major impact event. A complement to field investigations is developing a detailed database of flash flood events, including minor events and null reports (i.e., where heavy rain occurred but there was no flash flooding), based on public survey questions conducted in near-real time. The Severe hazards analysis and verification experiment (SHAVE) has been in operation at the National Severe Storms Laboratory (NSSL) in Norman, OK, USA during the summers since 2006. The experiment employs undergraduate students to analyse real-time products from weather radars, target specific regions within the conterminous US, and poll public residences and businesses regarding the occurrence and severity of hail, wind, tornadoes, and now flash floods. In addition to providing a rich learning experience for students, SHAVE has also been successful in creating high-resolution datasets of severe hazards used for algorithm and model verification. This paper describes the criteria used to initiate the flash flood survey, the specific questions asked and information entered to the database, and then provides an analysis of results for flash flood data collected during the summer of 2008. It is envisioned that specific details provided by the SHAVE flash flood observation database will complement databases collected by operational agencies (i.e., US National Weather Service Storm Data reports) and thus lead to better tools to predict the likelihood of flash floods and ultimately reduce their impacts on society.
Epidemic predictions in an imperfect world: modelling disease spread with partial data

PubMed Central

Dawson, Peter M.; Werkman, Marleen; Brooks-Pollock, Ellen; Tildesley, Michael J.

2015-01-01

‘Big-data’ epidemic models are being increasingly used to influence government policy to help with control and eradication of infectious diseases. In the case of livestock, detailed movement records have been used to parametrize realistic transmission models. While livestock movement data are readily available in the UK and other countries in the EU, in many countries around the world, such detailed data are not available. By using a comprehensive database of the UK cattle trade network, we implement various sampling strategies to determine the quantity of network data required to give accurate epidemiological predictions. It is found that by targeting nodes with the highest number of movements, accurate predictions on the size and spatial spread of epidemics can be made. This work has implications for countries such as the USA, where access to data is limited, and developing countries that may lack the resources to collect a full dataset on livestock movements. PMID:25948687
On the frequency-magnitude distribution of converging boundaries

NASA Astrophysics Data System (ADS)

Marzocchi, W.; Laura, S.; Heuret, A.; Funiciello, F.

2011-12-01

The occurrence of the last mega-thrust earthquake in Japan has clearly remarked the high risk posed to society by such events in terms of social and economic losses even at large spatial scale. The primary component for a balanced and objective mitigation of the impact of these earthquakes is the correct forecast of where such kind of events may occur in the future. To date, there is a wide range of opinions about where mega-thrust earthquakes can occur. Here, we aim at presenting some detailed statistical analysis of a database of worldwide interplate earthquakes occurring at current subduction zones. The database has been recently published in the framework of the EURYI Project 'Convergent margins and seismogenesis: defining the risk of great earthquakes by using statistical data and modelling', and it provides a unique opportunity to explore in detail the seismogenic process in subducting lithosphere. In particular, the statistical analysis of this database allows us to explore many interesting scientific issues such as the existence of different frequency-magnitude distributions across the trenches, the quantitative characterization of subduction zones that are able to produce more likely mega-thrust earthquakes, the prominent features that characterize converging boundaries with different seismic activity and so on. Besides the scientific importance, such issues may lead to improve our mega-thrust earthquake forecasting capability.
FReD: The Floral Reflectance Database — A Web Portal for Analyses of Flower Colour

PubMed Central

Savolainen, Vincent; McOwan, Peter W.; Chittka, Lars

2010-01-01

Background Flower colour is of great importance in various fields relating to floral biology and pollinator behaviour. However, subjective human judgements of flower colour may be inaccurate and are irrelevant to the ecology and vision of the flower's pollinators. For precise, detailed information about the colours of flowers, a full reflectance spectrum for the flower of interest should be used rather than relying on such human assessments. Methodology/Principal Findings The Floral Reflectance Database (FReD) has been developed to make an extensive collection of such data available to researchers. It is freely available at http://www.reflectance.co.uk. The database allows users to download spectral reflectance data for flower species collected from all over the world. These could, for example, be used in modelling interactions between pollinator vision and plant signals, or analyses of flower colours in various habitats. The database contains functions for calculating flower colour loci according to widely-used models of bee colour space, reflectance graphs of the spectra and an option to search for flowers with similar colours in bee colour space. Conclusions/Significance The Floral Reflectance Database is a valuable new tool for researchers interested in the colours of flowers and their association with pollinator colour vision, containing raw spectral reflectance data for a large number of flower species. PMID:21170326
Turbulent Mixing of Primary and Secondary Flow Streams in a Rocket-Based Combined Cycle Engine

NASA Technical Reports Server (NTRS)

Cramer, J. M.; Greene, M. U.; Pal, S.; Santoro, R. J.; Turner, Jim (Technical Monitor)

2002-01-01

This viewgraph presentation gives an overview of the turbulent mixing of primary and secondary flow streams in a rocket-based combined cycle (RBCC) engine. A significant RBCC ejector mode database has been generated, detailing single and twin thruster configurations and global and local measurements. On-going analysis and correlation efforts include Marshall Space Flight Center computational fluid dynamics modeling and turbulent shear layer analysis. Potential follow-on activities include detailed measurements of air flow static pressure and velocity profiles, investigations into other thruster spacing configurations, performing a fundamental shear layer mixing study, and demonstrating single-shot Raman measurements.
Web-based Visualization and Query of semantically segmented multiresolution 3D Models in the Field of Cultural Heritage

NASA Astrophysics Data System (ADS)

Auer, M.; Agugiaro, G.; Billen, N.; Loos, L.; Zipf, A.

2014-05-01

Many important Cultural Heritage sites have been studied over long periods of time by different means of technical equipment, methods and intentions by different researchers. This has led to huge amounts of heterogeneous "traditional" datasets and formats. The rising popularity of 3D models in the field of Cultural Heritage in recent years has brought additional data formats and makes it even more necessary to find solutions to manage, publish and study these data in an integrated way. The MayaArch3D project aims to realize such an integrative approach by establishing a web-based research platform bringing spatial and non-spatial databases together and providing visualization and analysis tools. Especially the 3D components of the platform use hierarchical segmentation concepts to structure the data and to perform queries on semantic entities. This paper presents a database schema to organize not only segmented models but also different Levels-of-Details and other representations of the same entity. It is further implemented in a spatial database which allows the storing of georeferenced 3D data. This enables organization and queries by semantic, geometric and spatial properties. As service for the delivery of the segmented models a standardization candidate of the OpenGeospatialConsortium (OGC), the Web3DService (W3DS) has been extended to cope with the new database schema and deliver a web friendly format for WebGL rendering. Finally a generic user interface is presented which uses the segments as navigation metaphor to browse and query the semantic segmentation levels and retrieve information from an external database of the German Archaeological Institute (DAI).
Using the Proteomics Identifications Database (PRIDE).

PubMed

Martens, Lennart; Jones, Phil; Côté, Richard

2008-03-01

The Proteomics Identifications Database (PRIDE) is a public data repository designed to store, disseminate, and analyze mass spectrometry based proteomics datasets. The PRIDE database can accommodate any level of detailed metadata about the submitted results, which can be queried, explored, viewed, or downloaded via the PRIDE Web interface. The PRIDE database also provides a simple, yet powerful, access control mechanism that fully supports confidential peer-reviewing of data related to a manuscript, ensuring that these results remain invisible to the general public while allowing referees and journal editors anonymized access to the data. This unit describes in detail the functionality that PRIDE provides with regards to searching, viewing, and comparing the available data, as well as different options for submitting data to PRIDE.
The thyrotropin receptor mutation database: update 2003.

PubMed

Führer, Dagmar; Lachmund, Peter; Nebel, Istvan-Tibor; Paschke, Ralf

2003-12-01

In 1999 we have created a TSHR mutation database compiling TSHR mutations with their basic characteristics and associated clinical conditions (www.uni-leipzig.de/innere/tshr). Since then, more than 2887 users from 36 countries have logged into the TSHR mutation database and have contributed several valuable suggestions for further improvement of the database. We now present an updated and extended version of the TSHR database to which several novel features have been introduced: 1. detailed functional characteristics on all 65 mutations (43 activating and 22 inactivating mutations) reported to date, 2. 40 pedigrees with detailed information on molecular aspects, clinical courses and treatment options in patients with gain-of-function and loss-of-function germline TSHR mutations, 3. a first compilation of site-directed mutagenesis studies, 4. references with Medline links, 5. a user friendly search tool for specific database searches, user-specific database output and 6. an administrator tool for the submission of novel TSHR mutations. The TSHR mutation database is installed as one of the locus specific HUGO mutation databases. It is listed under index TSHR 603372 (http://ariel.ucs.unimelb.edu.au/~cotton/glsdbq.htm) and can be accessed via www.uni-leipzig.de/innere/tshr.
Database Software for Social Studies. A MicroSIFT Quarterly Report.

ERIC Educational Resources Information Center

Weaver, Dave

The report describes and evaluates the use of a set of learning tools called database managers and their creation of databases to help teach problem solving skills in social studies. Details include the design, building, and use of databases in a social studies setting, along with advantages and disadvantages of using them. The three types of…
Ten Years Experience In Geo-Databases For Linear Facilities Risk Assessment (Lfra)

NASA Astrophysics Data System (ADS)

Oboni, F.

2003-04-01

Keywords: geo-environmental, database, ISO14000, management, decision-making, risk, pipelines, roads, railroads, loss control, SAR, hazard identification ABSTRACT: During the past decades, characterized by the development of the Risk Management (RM) culture, a variety of different RM models have been proposed by governmental agencies in various parts of the world. The most structured models appear to have originated in the field of environmental RM. These models are briefly reviewed in the first section of the paper focusing the attention on the difference between Hazard Management and Risk Management and the need to use databases in order to allow retrieval of specific information and effective updating. The core of the paper reviews a number of different RM approaches, based on extensions of geo-databases, specifically developed for linear facilities (LF) in transportation corridors since the early 90s in Switzerland, Italy, Canada, the US and South America. The applications are compared in terms of methodology, capabilities and resources necessary to their implementation. The paper then focuses the attention on the level of detail that applications and related data have to attain. Common pitfalls related to decision making based on hazards rather than on risks are discussed. The paper focuses the last sections on the description of the next generation of linear facility RA application, including examples of results and discussion of future methodological research. It is shown that geo-databases should be linked to loss control and accident reports in order to maximize their benefits. The links between RA and ISO 14000 (environmental management code) are explicitly considered.
Reflecting on the challenges of building a rich interconnected metadata database to describe the experiments of phase six of the coupled climate model intercomparison project (CMIP6) for the Earth System Documentation Project (ES-DOC) and anticipating the opportunities that tooling and services based on rich metadata can provide.

NASA Astrophysics Data System (ADS)

Pascoe, C. L.

2017-12-01

The Coupled Model Intercomparison Project (CMIP) has coordinated climate model experiments involving multiple international modelling teams since 1995. This has led to a better understanding of past, present, and future climate. The 2017 sixth phase of the CMIP process (CMIP6) consists of a suite of common experiments, and 21 separate CMIP-Endorsed Model Intercomparison Projects (MIPs) making a total of 244 separate experiments. Precise descriptions of the suite of CMIP6 experiments have been captured in a Common Information Model (CIM) database by the Earth System Documentation Project (ES-DOC). The database contains descriptions of forcings, model configuration requirements, ensemble information and citation links, as well as text descriptions and information about the rationale for each experiment. The database was built from statements about the experiments found in the academic literature, the MIP submissions to the World Climate Research Programme (WCRP), WCRP summary tables and correspondence with the principle investigators for each MIP. The database was collated using spreadsheets which are archived in the ES-DOC Github repository and then rendered on the ES-DOC website. A diagramatic view of the workflow of building the database of experiment metadata for CMIP6 is shown in the attached figure.The CIM provides the formalism to collect detailed information from diverse sources in a standard way across all the CMIP6 MIPs. The ES-DOC documentation acts as a unified reference for CMIP6 information to be used both by data producers and consumers. This is especially important given the federated nature of the CMIP6 project. Because the CIM allows forcing constraints and other experiment attributes to be referred to by more than one experiment, we can streamline the process of collecting information from modelling groups about how they set up their models for each experiment. End users of the climate model archive will be able to ask questions enabled by the interconnectedness of the metadata such as "Which MIPs make use of experiment A?" and "Which experiments use forcing constraint B?".
Shuttle Hypervelocity Impact Database

NASA Technical Reports Server (NTRS)

Hyde, James L.; Christiansen, Eric L.; Lear, Dana M.

2011-01-01

With three missions outstanding, the Shuttle Hypervelocity Impact Database has nearly 3000 entries. The data is divided into tables for crew module windows, payload bay door radiators and thermal protection system regions, with window impacts compromising just over half the records. In general, the database provides dimensions of hypervelocity impact damage, a component level location (i.e., window number or radiator panel number) and the orbiter mission when the impact occurred. Additional detail on the type of particle that produced the damage site is provided when sampling data and definitive analysis results are available. Details and insights on the contents of the database including examples of descriptive statistics will be provided. Post flight impact damage inspection and sampling techniques that were employed during the different observation campaigns will also be discussed. Potential enhancements to the database structure and availability of the data for other researchers will be addressed in the Future Work section. A related database of returned surfaces from the International Space Station will also be introduced.
Spatial cyberinfrastructures, ontologies, and the humanities.

PubMed

Sieber, Renee E; Wellen, Christopher C; Jin, Yuan

2011-04-05

We report on research into building a cyberinfrastructure for Chinese biographical and geographic data. Our cyberinfrastructure contains (i) the McGill-Harvard-Yenching Library Ming Qing Women's Writings database (MQWW), the only online database on historical Chinese women's writings, (ii) the China Biographical Database, the authority for Chinese historical people, and (iii) the China Historical Geographical Information System, one of the first historical geographic information systems. Key to this integration is that linked databases retain separate identities as bases of knowledge, while they possess sufficient semantic interoperability to allow for multidatabase concepts and to support cross-database queries on an ad hoc basis. Computational ontologies create underlying semantics for database access. This paper focuses on the spatial component in a humanities cyberinfrastructure, which includes issues of conflicting data, heterogeneous data models, disambiguation, and geographic scale. First, we describe the methodology for integrating the databases. Then we detail the system architecture, which includes a tier of ontologies and schema. We describe the user interface and applications that allow for cross-database queries. For instance, users should be able to analyze the data, examine hypotheses on spatial and temporal relationships, and generate historical maps with datasets from MQWW for research, teaching, and publication on Chinese women writers, their familial relations, publishing venues, and the literary and social communities. Last, we discuss the social side of cyberinfrastructure development, as people are considered to be as critical as the technical components for its success.

Generation of signature databases with fast codes

NASA Astrophysics Data System (ADS)

Bradford, Robert A.; Woodling, Arthur E.; Brazzell, James S.

1990-09-01

Using the FASTSIG signature code to generate optical signature databases for the Ground-based Surveillance and Traking System (GSTS) Program has improved the efficiency of the database generation process. The goal of the current GSTS database is to provide standardized, threat representative target signatures that can easily be used for acquisition and trk studies, discrimination algorithm development, and system simulations. Large databases, with as many as eight interpolalion parameters, are required to maintain the fidelity demands of discrimination and to generalize their application to other strateg systems. As the need increases for quick availability of long wave infrared (LWIR) target signatures for an evolving design4o-threat, FASTSIG has become a database generation alternative to using the industry standard OptiCal Signatures Code (OSC). FASTSIG, developed in 1985 to meet the unique strategic systems demands imposed by the discrimination function, has the significant advantage of being a faster running signature code than the OSC, typically requiring two percent of the cpu time. It uses analytical approximations to model axisymmetric targets, with the fidelity required for discrimination analysis. Access of the signature database is accomplished through use of the waveband integration and interpolation software, INTEG and SIGNAT. This paper gives details of this procedure as well as sample interpolated signatures and also covers sample verification by comparison to the OSC, in order to establish the fidelity of the FASTSIG generated database.
Commercial Building Energy Saver, API

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hong, Tianzhen; Piette, Mary; Lee, Sang Hoon

2015-08-27

The CBES API provides Application Programming Interface to a suite of functions to improve energy efficiency of buildings, including building energy benchmarking, preliminary retrofit analysis using a pre-simulation database DEEP, and detailed retrofit analysis using energy modeling with the EnergyPlus simulation engine. The CBES API is used to power the LBNL CBES Web App. It can be adopted by third party developers and vendors into their software tools and platforms.
Mobile Food Ordering Application using Android OS Platform

NASA Astrophysics Data System (ADS)

Yosep Ricky, Michael

2014-03-01

The purpose of this research is making an ordering food application based on Android with New Order, Order History, Restaurant Profile, Order Status, Tracking Order, and Setting Profile features. The research method used in this research is water model of System Development Life Cycle (SDLC) method with following phases: requirement definition, analyzing and determining the features needed in developing application and making the detail definition of each features, system and software design, designing the flow of developing application by using storyboard design, user experience design, Unified Modeling Language (UML) design, and database structure design, implementation an unit testing, making database and translating the result of designs to programming language code then doing unit testing, integration and System testing, integrating unit program to one unit system then doing system testing, operation and maintenance, operating the result of system testing and if any changes and reparations needed then the previous phases could be back. The result of this research is an ordering food application based on Android for customer and courier user, and a website for restaurant and admin user. The conclusion of this research is to help customer in making order easily, to give detail information needed by customer, to help restaurant in receiving order, and to help courier while doing delivery.
CellML metadata standards, associated tools and repositories

PubMed Central

Beard, Daniel A.; Britten, Randall; Cooling, Mike T.; Garny, Alan; Halstead, Matt D.B.; Hunter, Peter J.; Lawson, James; Lloyd, Catherine M.; Marsh, Justin; Miller, Andrew; Nickerson, David P.; Nielsen, Poul M.F.; Nomura, Taishin; Subramanium, Shankar; Wimalaratne, Sarala M.; Yu, Tommy

2009-01-01

The development of standards for encoding mathematical models is an important component of model building and model sharing among scientists interested in understanding multi-scale physiological processes. CellML provides such a standard, particularly for models based on biophysical mechanisms, and a substantial number of models are now available in the CellML Model Repository. However, there is an urgent need to extend the current CellML metadata standard to provide biological and biophysical annotation of the models in order to facilitate model sharing, automated model reduction and connection to biological databases. This paper gives a broad overview of a number of new developments on CellML metadata and provides links to further methodological details available from the CellML website. PMID:19380315
A Data Management System for International Space Station Simulation Tools

NASA Technical Reports Server (NTRS)

Betts, Bradley J.; DelMundo, Rommel; Elcott, Sharif; McIntosh, Dawn; Niehaus, Brian; Papasin, Richard; Mah, Robert W.; Clancy, Daniel (Technical Monitor)

2002-01-01

Groups associated with the design, operational, and training aspects of the International Space Station make extensive use of modeling and simulation tools. Users of these tools often need to access and manipulate large quantities of data associated with the station, ranging from design documents to wiring diagrams. Retrieving and manipulating this data directly within the simulation and modeling environment can provide substantial benefit to users. An approach for providing these kinds of data management services, including a database schema and class structure, is presented. Implementation details are also provided as a data management system is integrated into the Intelligent Virtual Station, a modeling and simulation tool developed by the NASA Ames Smart Systems Research Laboratory. One use of the Intelligent Virtual Station is generating station-related training procedures in a virtual environment, The data management component allows users to quickly and easily retrieve information related to objects on the station, enhancing their ability to generate accurate procedures. Users can associate new information with objects and have that information stored in a database.
Cytoscape: a software environment for integrated models of biomolecular interaction networks.

PubMed

Shannon, Paul; Markiel, Andrew; Ozier, Owen; Baliga, Nitin S; Wang, Jonathan T; Ramage, Daniel; Amin, Nada; Schwikowski, Benno; Ideker, Trey

2003-11-01

Cytoscape is an open source software project for integrating biomolecular interaction networks with high-throughput expression data and other molecular states into a unified conceptual framework. Although applicable to any system of molecular components and interactions, Cytoscape is most powerful when used in conjunction with large databases of protein-protein, protein-DNA, and genetic interactions that are increasingly available for humans and model organisms. Cytoscape's software Core provides basic functionality to layout and query the network; to visually integrate the network with expression profiles, phenotypes, and other molecular states; and to link the network to databases of functional annotations. The Core is extensible through a straightforward plug-in architecture, allowing rapid development of additional computational analyses and features. Several case studies of Cytoscape plug-ins are surveyed, including a search for interaction pathways correlating with changes in gene expression, a study of protein complexes involved in cellular recovery to DNA damage, inference of a combined physical/functional interaction network for Halobacterium, and an interface to detailed stochastic/kinetic gene regulatory models.
New Resources for Computer-Aided Legal Research: An Assessment of the Usefulness of the DIALOG System in Securities Regulation Studies.

ERIC Educational Resources Information Center

Gruner, Richard; Heron, Carol E.

1984-01-01

Examines usefulness of DIALOG as legal research tool through use of DIALOG's DIALINDEX database to identify those databases among almost 200 available that contain large numbers of records related to federal securities regulation. Eight databases selected for further study are detailed. Twenty-six footnotes, database statistics, and samples are…
NeuroTransDB: highly curated and structured transcriptomic metadata for neurodegenerative diseases.

PubMed

Bagewadi, Shweta; Adhikari, Subash; Dhrangadhariya, Anjani; Irin, Afroza Khanam; Ebeling, Christian; Namasivayam, Aishwarya Alex; Page, Matthew; Hofmann-Apitius, Martin; Senger, Philipp

2015-01-01

Neurodegenerative diseases are chronic debilitating conditions, characterized by progressive loss of neurons that represent a significant health care burden as the global elderly population continues to grow. Over the past decade, high-throughput technologies such as the Affymetrix GeneChip microarrays have provided new perspectives into the pathomechanisms underlying neurodegeneration. Public transcriptomic data repositories, namely Gene Expression Omnibus and curated ArrayExpress, enable researchers to conduct integrative meta-analysis; increasing the power to detect differentially regulated genes in disease and explore patterns of gene dysregulation across biologically related studies. The reliability of retrospective, large-scale integrative analyses depends on an appropriate combination of related datasets, in turn requiring detailed meta-annotations capturing the experimental setup. In most cases, we observe huge variation in compliance to defined standards for submitted metadata in public databases. Much of the information to complete, or refine meta-annotations are distributed in the associated publications. For example, tissue preparation or comorbidity information is frequently described in an article's supplementary tables. Several value-added databases have employed additional manual efforts to overcome this limitation. However, none of these databases explicate annotations that distinguish human and animal models in neurodegeneration context. Therefore, adopting a more specific disease focus, in combination with dedicated disease ontologies, will better empower the selection of comparable studies with refined annotations to address the research question at hand. In this article, we describe the detailed development of NeuroTransDB, a manually curated database containing metadata annotations for neurodegenerative studies. The database contains more than 20 dimensions of metadata annotations within 31 mouse, 5 rat and 45 human studies, defined in collaboration with domain disease experts. We elucidate the step-by-step guidelines used to critically prioritize studies from public archives and their metadata curation and discuss the key challenges encountered. Curated metadata for Alzheimer's disease gene expression studies are available for download. Database URL: www.scai.fraunhofer.de/NeuroTransDB.html. © The Author(s) 2015. Published by Oxford University Press.
NeuroTransDB: highly curated and structured transcriptomic metadata for neurodegenerative diseases

PubMed Central

Bagewadi, Shweta; Adhikari, Subash; Dhrangadhariya, Anjani; Irin, Afroza Khanam; Ebeling, Christian; Namasivayam, Aishwarya Alex; Page, Matthew; Hofmann-Apitius, Martin

2015-01-01

Neurodegenerative diseases are chronic debilitating conditions, characterized by progressive loss of neurons that represent a significant health care burden as the global elderly population continues to grow. Over the past decade, high-throughput technologies such as the Affymetrix GeneChip microarrays have provided new perspectives into the pathomechanisms underlying neurodegeneration. Public transcriptomic data repositories, namely Gene Expression Omnibus and curated ArrayExpress, enable researchers to conduct integrative meta-analysis; increasing the power to detect differentially regulated genes in disease and explore patterns of gene dysregulation across biologically related studies. The reliability of retrospective, large-scale integrative analyses depends on an appropriate combination of related datasets, in turn requiring detailed meta-annotations capturing the experimental setup. In most cases, we observe huge variation in compliance to defined standards for submitted metadata in public databases. Much of the information to complete, or refine meta-annotations are distributed in the associated publications. For example, tissue preparation or comorbidity information is frequently described in an article’s supplementary tables. Several value-added databases have employed additional manual efforts to overcome this limitation. However, none of these databases explicate annotations that distinguish human and animal models in neurodegeneration context. Therefore, adopting a more specific disease focus, in combination with dedicated disease ontologies, will better empower the selection of comparable studies with refined annotations to address the research question at hand. In this article, we describe the detailed development of NeuroTransDB, a manually curated database containing metadata annotations for neurodegenerative studies. The database contains more than 20 dimensions of metadata annotations within 31 mouse, 5 rat and 45 human studies, defined in collaboration with domain disease experts. We elucidate the step-by-step guidelines used to critically prioritize studies from public archives and their metadata curation and discuss the key challenges encountered. Curated metadata for Alzheimer’s disease gene expression studies are available for download. Database URL: www.scai.fraunhofer.de/NeuroTransDB.html PMID:26475471
GEOMAGIA50: An archeointensity database with PHP and MySQL

NASA Astrophysics Data System (ADS)

Korhonen, K.; Donadini, F.; Riisager, P.; Pesonen, L. J.

2008-04-01

The GEOMAGIA50 database stores 3798 archeomagnetic and paleomagnetic intensity determinations dated to the past 50,000 years. It also stores details of the measurement setup for each determination, which are used for ranking the data according to prescribed reliability criteria. The ranking system aims to alleviate the data reliability problem inherent in this kind of data. GEOMAGIA50 is based on two popular open source technologies. The MySQL database management system is used for storing the data, whereas the functionality and user interface are provided by server-side PHP scripts. This technical brief gives a detailed description of GEOMAGIA50 from a technical viewpoint.
Software Engineering Laboratory (SEL) database organization and user's guide, revision 2

NASA Technical Reports Server (NTRS)

Morusiewicz, Linda; Bristow, John

1992-01-01

The organization of the Software Engineering Laboratory (SEL) database is presented. Included are definitions and detailed descriptions of the database tables and views, the SEL data, and system support data. The mapping from the SEL and system support data to the base table is described. In addition, techniques for accessing the database through the Database Access Manager for the SEL (DAMSEL) system and via the ORACLE structured query language (SQL) are discussed.
Software Engineering Laboratory (SEL) database organization and user's guide

NASA Technical Reports Server (NTRS)

So, Maria; Heller, Gerard; Steinberg, Sandra; Spiegel, Douglas

1989-01-01

The organization of the Software Engineering Laboratory (SEL) database is presented. Included are definitions and detailed descriptions of the database tables and views, the SEL data, and system support data. The mapping from the SEL and system support data to the base tables is described. In addition, techniques for accessing the database, through the Database Access Manager for the SEL (DAMSEL) system and via the ORACLE structured query language (SQL), are discussed.
A novel medical image data-based multi-physics simulation platform for computational life sciences.

PubMed

Neufeld, Esra; Szczerba, Dominik; Chavannes, Nicolas; Kuster, Niels

2013-04-06

Simulating and modelling complex biological systems in computational life sciences requires specialized software tools that can perform medical image data-based modelling, jointly visualize the data and computational results, and handle large, complex, realistic and often noisy anatomical models. The required novel solvers must provide the power to model the physics, biology and physiology of living tissue within the full complexity of the human anatomy (e.g. neuronal activity, perfusion and ultrasound propagation). A multi-physics simulation platform satisfying these requirements has been developed for applications including device development and optimization, safety assessment, basic research, and treatment planning. This simulation platform consists of detailed, parametrized anatomical models, a segmentation and meshing tool, a wide range of solvers and optimizers, a framework for the rapid development of specialized and parallelized finite element method solvers, a visualization toolkit-based visualization engine, a Python scripting interface for customized applications, a coupling framework, and more. Core components are cross-platform compatible and use open formats. Several examples of applications are presented: hyperthermia cancer treatment planning, tumour growth modelling, evaluating the magneto-haemodynamic effect as a biomarker and physics-based morphing of anatomical models.
Topologically Consistent Models for Efficient Big Geo-Spatio Data Distribution

NASA Astrophysics Data System (ADS)

Jahn, M. W.; Bradley, P. E.; Doori, M. Al; Breunig, M.

2017-10-01

Geo-spatio-temporal topology models are likely to become a key concept to check the consistency of 3D (spatial space) and 4D (spatial + temporal space) models for emerging GIS applications such as subsurface reservoir modelling or the simulation of energy and water supply of mega or smart cities. Furthermore, the data management for complex models consisting of big geo-spatial data is a challenge for GIS and geo-database research. General challenges, concepts, and techniques of big geo-spatial data management are presented. In this paper we introduce a sound mathematical approach for a topologically consistent geo-spatio-temporal model based on the concept of the incidence graph. We redesign DB4GeO, our service-based geo-spatio-temporal database architecture, on the way to the parallel management of massive geo-spatial data. Approaches for a new geo-spatio-temporal and object model of DB4GeO meeting the requirements of big geo-spatial data are discussed in detail. Finally, a conclusion and outlook on our future research are given on the way to support the processing of geo-analytics and -simulations in a parallel and distributed system environment.
Design of a Multi Dimensional Database for the Archimed DataWarehouse.

PubMed

Bréant, Claudine; Thurler, Gérald; Borst, François; Geissbuhler, Antoine

2005-01-01

The Archimed data warehouse project started in 1993 at the Geneva University Hospital. It has progressively integrated seven data marts (or domains of activity) archiving medical data such as Admission/Discharge/Transfer (ADT) data, laboratory results, radiology exams, diagnoses, and procedure codes. The objective of the Archimed data warehouse is to facilitate the access to an integrated and coherent view of patient medical in order to support analytical activities such as medical statistics, clinical studies, retrieval of similar cases and data mining processes. This paper discusses three principal design aspects relative to the conception of the database of the data warehouse: 1) the granularity of the database, which refers to the level of detail or summarization of data, 2) the database model and architecture, describing how data will be presented to end users and how new data is integrated, 3) the life cycle of the database, in order to ensure long term scalability of the environment. Both, the organization of patient medical data using a standardized elementary fact representation and the use of the multi dimensional model have proved to be powerful design tools to integrate data coming from the multiple heterogeneous database systems part of the transactional Hospital Information System (HIS). Concurrently, the building of the data warehouse in an incremental way has helped to control the evolution of the data content. These three design aspects bring clarity and performance regarding data access. They also provide long term scalability to the system and resilience to further changes that may occur in source systems feeding the data warehouse.
Developing a Large Lexical Database for Information Retrieval, Parsing, and Text Generation Systems.

ERIC Educational Resources Information Center

Conlon, Sumali Pin-Ngern; And Others

1993-01-01

Important characteristics of lexical databases and their applications in information retrieval and natural language processing are explained. An ongoing project using various machine-readable sources to build a lexical database is described, and detailed designs of individual entries with examples are included. (Contains 66 references.) (EAM)
Publications - DDS 8 | Alaska Division of Geological & Geophysical Surveys

Science.gov Websites

DGGS DDS 8 Publication Details Title: Alaska Volcano Observatory geochemical database Authors: Cameron ., Snedigar, S.F., and Nye, C.J., 2014, Alaska Volcano Observatory geochemical database: Alaska Division of ://doi.org/10.14509/29120 Publication Products Interactive Interactive Database Alaska Volcano Observatory
Subject Specific Databases: A Powerful Research Tool

ERIC Educational Resources Information Center

Young, Terrence E., Jr.

2004-01-01

Subject specific databases, or vortals (vertical portals), are databases that provide highly detailed research information on a particular topic. They are the smallest, most focused search tools on the Internet and, in recent years, they've been on the rise. Currently, more of the so-called "mainstream" search engines, subject directories, and…
Technical Work Plan for: Thermodynamic Database for Chemical Modeling

DOE Office of Scientific and Technical Information (OSTI.GOV)

C.F. Jovecolon

The objective of the work scope covered by this Technical Work Plan (TWP) is to correct and improve the Yucca Mountain Project (YMP) thermodynamic databases, to update their documentation, and to ensure reasonable consistency among them. In addition, the work scope will continue to generate database revisions, which are organized and named so as to be transparent to internal and external users and reviewers. Regarding consistency among databases, it is noted that aqueous speciation and mineral solubility data for a given system may differ according to how solubility was determined, and the method used for subsequent retrieval of thermodynamic parametermore » values from measured data. Of particular concern are the details of the determination of ''infinite dilution'' constants, which involve the use of specific methods for activity coefficient corrections. That is, equilibrium constants developed for a given system for one set of conditions may not be consistent with constants developed for other conditions, depending on the species considered in the chemical reactions and the methods used in the reported studies. Hence, there will be some differences (for example in log K values) between the Pitzer and ''B-dot'' database parameters for the same reactions or species.« less
Human Ageing Genomic Resources: Integrated databases and tools for the biology and genetics of ageing

PubMed Central

Tacutu, Robi; Craig, Thomas; Budovsky, Arie; Wuttke, Daniel; Lehmann, Gilad; Taranukha, Dmitri; Costa, Joana; Fraifeld, Vadim E.; de Magalhães, João Pedro

2013-01-01

The Human Ageing Genomic Resources (HAGR, http://genomics.senescence.info) is a freely available online collection of research databases and tools for the biology and genetics of ageing. HAGR features now several databases with high-quality manually curated data: (i) GenAge, a database of genes associated with ageing in humans and model organisms; (ii) AnAge, an extensive collection of longevity records and complementary traits for >4000 vertebrate species; and (iii) GenDR, a newly incorporated database, containing both gene mutations that interfere with dietary restriction-mediated lifespan extension and consistent gene expression changes induced by dietary restriction. Since its creation about 10 years ago, major efforts have been undertaken to maintain the quality of data in HAGR, while further continuing to develop, improve and extend it. This article briefly describes the content of HAGR and details the major updates since its previous publications, in terms of both structure and content. The completely redesigned interface, more intuitive and more integrative of HAGR resources, is also presented. Altogether, we hope that through its improvements, the current version of HAGR will continue to provide users with the most comprehensive and accessible resources available today in the field of biogerontology. PMID:23193293

MiCroKit 3.0: an integrated database of midbody, centrosome and kinetochore.

PubMed

Ren, Jian; Liu, Zexian; Gao, Xinjiao; Jin, Changjiang; Ye, Mingliang; Zou, Hanfa; Wen, Longping; Zhang, Zhaolei; Xue, Yu; Yao, Xuebiao

2010-01-01

During cell division/mitosis, a specific subset of proteins is spatially and temporally assembled into protein super complexes in three distinct regions, i.e. centrosome/spindle pole, kinetochore/centromere and midbody/cleavage furrow/phragmoplast/bud neck, and modulates cell division process faithfully. Although many experimental efforts have been carried out to investigate the characteristics of these proteins, no integrated database was available. Here, we present the MiCroKit database (http://microkit.biocuckoo.org) of proteins that localize in midbody, centrosome and/or kinetochore. We collected into the MiCroKit database experimentally verified microkit proteins from the scientific literature that have unambiguous supportive evidence for subcellular localization under fluorescent microscope. The current version of MiCroKit 3.0 provides detailed information for 1489 microkit proteins from seven model organisms, including Saccharomyces cerevisiae, Schizasaccharomyces pombe, Caenorhabditis elegans, Drosophila melanogaster, Xenopus laevis, Mus musculus and Homo sapiens. Moreover, the orthologous information was provided for these microkit proteins, and could be a useful resource for further experimental identification. The online service of MiCroKit database was implemented in PHP + MySQL + JavaScript, while the local packages were developed in JAVA 1.5 (J2SE 5.0).
MiCroKit 3.0: an integrated database of midbody, centrosome and kinetochore

PubMed Central

Liu, Zexian; Gao, Xinjiao; Jin, Changjiang; Ye, Mingliang; Zou, Hanfa; Wen, Longping; Zhang, Zhaolei; Xue, Yu; Yao, Xuebiao

2010-01-01

During cell division/mitosis, a specific subset of proteins is spatially and temporally assembled into protein super complexes in three distinct regions, i.e. centrosome/spindle pole, kinetochore/centromere and midbody/cleavage furrow/phragmoplast/bud neck, and modulates cell division process faithfully. Although many experimental efforts have been carried out to investigate the characteristics of these proteins, no integrated database was available. Here, we present the MiCroKit database (http://microkit.biocuckoo.org) of proteins that localize in midbody, centrosome and/or kinetochore. We collected into the MiCroKit database experimentally verified microkit proteins from the scientific literature that have unambiguous supportive evidence for subcellular localization under fluorescent microscope. The current version of MiCroKit 3.0 provides detailed information for 1489 microkit proteins from seven model organisms, including Saccharomyces cerevisiae, Schizasaccharomyces pombe, Caenorhabditis elegans, Drosophila melanogaster, Xenopus laevis, Mus musculus and Homo sapiens. Moreover, the orthologous information was provided for these microkit proteins, and could be a useful resource for further experimental identification. The online service of MiCroKit database was implemented in PHP + MySQL + JavaScript, while the local packages were developed in JAVA 1.5 (J2SE 5.0). PMID:19783819
Web application for detailed real-time database transaction monitoring for CMS condition data

NASA Astrophysics Data System (ADS)

de Gruttola, Michele; Di Guida, Salvatore; Innocente, Vincenzo; Pierro, Antonio

2012-12-01

In the upcoming LHC era, database have become an essential part for the experiments collecting data from LHC, in order to safely store, and consistently retrieve, a wide amount of data, which are produced by different sources. In the CMS experiment at CERN, all this information is stored in ORACLE databases, allocated in several servers, both inside and outside the CERN network. In this scenario, the task of monitoring different databases is a crucial database administration issue, since different information may be required depending on different users' tasks such as data transfer, inspection, planning and security issues. We present here a web application based on Python web framework and Python modules for data mining purposes. To customize the GUI we record traces of user interactions that are used to build use case models. In addition the application detects errors in database transactions (for example identify any mistake made by user, application failure, unexpected network shutdown or Structured Query Language (SQL) statement error) and provides warning messages from the different users' perspectives. Finally, in order to fullfill the requirements of the CMS experiment community, and to meet the new development in many Web client tools, our application was further developed, and new features were deployed.
Detailed tail proteomic analysis of axolotl (Ambystoma mexicanum) using an mRNA-seq reference database.

PubMed

Demircan, Turan; Keskin, Ilknur; Dumlu, Seda Nilgün; Aytürk, Nilüfer; Avşaroğlu, Mahmut Erhan; Akgün, Emel; Öztürk, Gürkan; Baykal, Ahmet Tarık

2017-01-01

Salamander axolotl has been emerging as an important model for stem cell research due to its powerful regenerative capacity. Several advantages, such as the high capability of advanced tissue, organ, and appendages regeneration, promote axolotl as an ideal model system to extend our current understanding on the mechanisms of regeneration. Acknowledging the common molecular pathways between amphibians and mammals, there is a great potential to translate the messages from axolotl research to mammalian studies. However, the utilization of axolotl is hindered due to the lack of reference databases of genomic, transcriptomic, and proteomic data. Here, we introduce the proteome analysis of the axolotl tail section searched against an mRNA-seq database. We translated axolotl mRNA sequences to protein sequences and annotated these to process the LC-MS/MS data and identified 1001 nonredundant proteins. Functional classification of identified proteins was performed by gene ontology searches. The presence of some of the identified proteins was validated by in situ antibody labeling. Furthermore, we have analyzed the proteome expressional changes postamputation at three time points to evaluate the underlying mechanisms of the regeneration process. Taken together, this work expands the proteomics data of axolotl to contribute to its establishment as a fully utilized model. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.
Architectural Heritage Visualization Using Interactive Technologies

NASA Astrophysics Data System (ADS)

Albourae, A. T.; Armenakis, C.; Kyan, M.

2017-08-01

With the increased exposure to tourists, historical monuments are at an ever-growing risk of disappearing. Building Information Modelling (BIM) offers a process of digitally documenting of all the features that are made or incorporated into the building over its life-span, thus affords unique opportunities for information preservation. BIM of historical buildings are called Historical Building Information Models (HBIM). This involves documenting a building in detail throughout its history. Geomatics professionals have the potential to play a major role in this area as they are often the first professionals involved on construction development sites for many Architectural, Engineering, and Construction (AEC) projects. In this work, we discuss how to establish an architectural database of a heritage site, digitally reconstruct, preserve and then interact with it through an immersive environment that leverages BIM for exploring historic buildings. The reconstructed heritage site under investigation was constructed in the early 15th century. In our proposed approach, the site selection was based on many factors such as architectural value, size, and accessibility. The 3D model is extracted from the original collected and integrated data (Image-based, range-based, CAD modelling, and land survey methods), after which the elements of the 3D objects are identified by creating a database using the BIM software platform (Autodesk Revit). The use of modern and widely accessible game engine technology (Unity3D) is explored, allowing the user to fully embed and interact with the scene using handheld devices. The details of implementing an integrated pipeline between HBIM, GIS and augmented and virtual reality (AVR) tools and the findings of the work are presented.
Computational models of O-LM cells are recruited by low or high theta frequency inputs depending on h-channel distributions

PubMed Central

Sekulić, Vladislav; Skinner, Frances K

2017-01-01

Although biophysical details of inhibitory neurons are becoming known, it is challenging to map these details onto function. Oriens-lacunosum/moleculare (O-LM) cells are inhibitory cells in the hippocampus that gate information flow, firing while phase-locked to theta rhythms. We build on our existing computational model database of O-LM cells to link model with function. We place our models in high-conductance states and modulate inhibitory inputs at a wide range of frequencies. We find preferred spiking recruitment of models at high (4–9 Hz) or low (2–5 Hz) theta depending on, respectively, the presence or absence of h-channels on their dendrites. This also depends on slow delayed-rectifier potassium channels, and preferred theta ranges shift when h-channels are potentiated by cyclic AMP. Our results suggest that O-LM cells can be differentially recruited by frequency-modulated inputs depending on specific channel types and distributions. This work exposes a strategy for understanding how biophysical characteristics contribute to function. DOI: http://dx.doi.org/10.7554/eLife.22962.001 PMID:28318488
Influence of high-resolution surface databases on the modeling of local atmospheric circulation systems

NASA Astrophysics Data System (ADS)

Paiva, L. M. S.; Bodstein, G. C. R.; Pimentel, L. C. G.

2014-08-01

Large-eddy simulations are performed using the Advanced Regional Prediction System (ARPS) code at horizontal grid resolutions as fine as 300 m to assess the influence of detailed and updated surface databases on the modeling of local atmospheric circulation systems of urban areas with complex terrain. Applications to air pollution and wind energy are sought. These databases are comprised of 3 arc-sec topographic data from the Shuttle Radar Topography Mission, 10 arc-sec vegetation-type data from the European Space Agency (ESA) GlobCover project, and 30 arc-sec leaf area index and fraction of absorbed photosynthetically active radiation data from the ESA GlobCarbon project. Simulations are carried out for the metropolitan area of Rio de Janeiro using six one-way nested-grid domains that allow the choice of distinct parametric models and vertical resolutions associated to each grid. ARPS is initialized using the Global Forecasting System with 0.5°-resolution data from the National Center of Environmental Prediction, which is also used every 3 h as lateral boundary condition. Topographic shading is turned on and two soil layers are used to compute the soil temperature and moisture budgets in all runs. Results for two simulated runs covering three periods of time are compared to surface and upper-air observational data to explore the dependence of the simulations on initial and boundary conditions, grid resolution, topographic and land-use databases. Our comparisons show overall good agreement between simulated and observational data, mainly for the potential temperature and the wind speed fields, and clearly indicate that the use of high-resolution databases improves significantly our ability to predict the local atmospheric circulation.
Payload accommodation and development planning tools - A Desktop Resource Leveling Model (DRLM)

NASA Technical Reports Server (NTRS)

Hilchey, John D.; Ledbetter, Bobby; Williams, Richard C.

1989-01-01

The Desktop Resource Leveling Model (DRLM) has been developed as a tool to rapidly structure and manipulate accommodation, schedule, and funding profiles for any kind of experiments, payloads, facilities, and flight systems or other project hardware. The model creates detailed databases describing 'end item' parameters, such as mass, volume, power requirements or costs and schedules for payload, subsystem, or flight system elements. It automatically spreads costs by calendar quarters and sums costs or accommodation parameters by total project, payload, facility, payload launch, or program phase. Final results can be saved or printed out, automatically documenting all assumptions, inputs, and defaults.
Publishing Your Database on CD-ROM for Profit: The FISHLIT and NISC Experience.

ERIC Educational Resources Information Center

Crampton, Margaret

1995-01-01

Details the development of the FISHLIT bibliographic database at the JLB Smith Institute of Ichthyology Library at Rhodes University (South Africa), and the subsequent CD-ROM publication of the database by NISC (National Information Services Corporation). Discusses the advantages of CD-ROM publication, costs and information service provision,…
A Public-Use, Full-Screen Interface for SPIRES Databases.

ERIC Educational Resources Information Center

Kriz, Harry M.

This paper describes the techniques for implementing a full-screen, custom SPIRES interface for a public-use library database. The database-independent protocol that controls the system is described in detail. Source code for an entire working application using this interface is included. The protocol, with less than 170 lines of procedural code,…
A UNIMARC Bibliographic Format Database for ABCD

ERIC Educational Resources Information Center

Megnigbeto, Eustache

2012-01-01

Purpose: ABCD is a web-based open and free software suite for library management derived from the UNESCO CDS/ISIS software technology. The first version was launched officially in December 2009 with a MARC 21 bibliographic format database. This paper aims to detail the building of the UNIMARC bibliographic format database for ABCD.…
A Database Design and Development Case: NanoTEK Networks

ERIC Educational Resources Information Center

Ballenger, Robert M.

2010-01-01

This case provides a real-world project-oriented case study for students enrolled in a management information systems, database management, or systems analysis and design course in which database design and development are taught. The case consists of a business scenario to provide background information and details of the unique operating…
Performance model for grid-connected photovoltaic inverters.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Boyson, William Earl; Galbraith, Gary M.; King, David L.

2007-09-01

This document provides an empirically based performance model for grid-connected photovoltaic inverters used for system performance (energy) modeling and for continuous monitoring of inverter performance during system operation. The versatility and accuracy of the model were validated for a variety of both residential and commercial size inverters. Default parameters for the model can be obtained from manufacturers specification sheets, and the accuracy of the model can be further refined using measurements from either well-instrumented field measurements in operational systems or using detailed measurements from a recognized testing laboratory. An initial database of inverter performance parameters was developed based on measurementsmore » conducted at Sandia National Laboratories and at laboratories supporting the solar programs of the California Energy Commission.« less
Development of a data entry auditing protocol and quality assurance for a tissue bank database.

PubMed

Khushi, Matloob; Carpenter, Jane E; Balleine, Rosemary L; Clarke, Christine L

2012-03-01

Human transcription error is an acknowledged risk when extracting information from paper records for entry into a database. For a tissue bank, it is critical that accurate data are provided to researchers with approved access to tissue bank material. The challenges of tissue bank data collection include manual extraction of data from complex medical reports that are accessed from a number of sources and that differ in style and layout. As a quality assurance measure, the Breast Cancer Tissue Bank (http:\\\\www.abctb.org.au) has implemented an auditing protocol and in order to efficiently execute the process, has developed an open source database plug-in tool (eAuditor) to assist in auditing of data held in our tissue bank database. Using eAuditor, we have identified that human entry errors range from 0.01% when entering donor's clinical follow-up details, to 0.53% when entering pathological details, highlighting the importance of an audit protocol tool such as eAuditor in a tissue bank database. eAuditor was developed and tested on the Caisis open source clinical-research database; however, it can be integrated in other databases where similar functionality is required.
Topobathymetric elevation model development using a new methodology: Coastal National Elevation Database

USGS Publications Warehouse

Danielson, Jeffrey J.; Poppenga, Sandra K.; Brock, John C.; Evans, Gayla A.; Tyler, Dean; Gesch, Dean B.; Thatcher, Cindy A.; Barras, John

2016-01-01

During the coming decades, coastlines will respond to widely predicted sea-level rise, storm surge, and coastalinundation flooding from disastrous events. Because physical processes in coastal environments are controlled by the geomorphology of over-the-land topography and underwater bathymetry, many applications of geospatial data in coastal environments require detailed knowledge of the near-shore topography and bathymetry. In this paper, an updated methodology used by the U.S. Geological Survey Coastal National Elevation Database (CoNED) Applications Project is presented for developing coastal topobathymetric elevation models (TBDEMs) from multiple topographic data sources with adjacent intertidal topobathymetric and offshore bathymetric sources to generate seamlessly integrated TBDEMs. This repeatable, updatable, and logically consistent methodology assimilates topographic data (land elevation) and bathymetry (water depth) into a seamless coastal elevation model. Within the overarching framework, vertical datum transformations are standardized in a workflow that interweaves spatially consistent interpolation (gridding) techniques with a land/water boundary mask delineation approach. Output gridded raster TBDEMs are stacked into a file storage system of mosaic datasets within an Esri ArcGIS geodatabase for efficient updating while maintaining current and updated spatially referenced metadata. Topobathymetric data provide a required seamless elevation product for several science application studies, such as shoreline delineation, coastal inundation mapping, sediment-transport, sea-level rise, storm surge models, and tsunami impact assessment. These detailed coastal elevation data are critical to depict regions prone to climate change impacts and are essential to planners and managers responsible for mitigating the associated risks and costs to both human communities and ecosystems. The CoNED methodology approach has been used to construct integrated TBDEM models in Mobile Bay, the northern Gulf of Mexico, San Francisco Bay, the Hurricane Sandy region, and southern California.
Spatial cyberinfrastructures, ontologies, and the humanities

PubMed Central

Sieber, Renee E.; Wellen, Christopher C.; Jin, Yuan

2011-01-01

We report on research into building a cyberinfrastructure for Chinese biographical and geographic data. Our cyberinfrastructure contains (i) the McGill-Harvard-Yenching Library Ming Qing Women's Writings database (MQWW), the only online database on historical Chinese women's writings, (ii) the China Biographical Database, the authority for Chinese historical people, and (iii) the China Historical Geographical Information System, one of the first historical geographic information systems. Key to this integration is that linked databases retain separate identities as bases of knowledge, while they possess sufficient semantic interoperability to allow for multidatabase concepts and to support cross-database queries on an ad hoc basis. Computational ontologies create underlying semantics for database access. This paper focuses on the spatial component in a humanities cyberinfrastructure, which includes issues of conflicting data, heterogeneous data models, disambiguation, and geographic scale. First, we describe the methodology for integrating the databases. Then we detail the system architecture, which includes a tier of ontologies and schema. We describe the user interface and applications that allow for cross-database queries. For instance, users should be able to analyze the data, examine hypotheses on spatial and temporal relationships, and generate historical maps with datasets from MQWW for research, teaching, and publication on Chinese women writers, their familial relations, publishing venues, and the literary and social communities. Last, we discuss the social side of cyberinfrastructure development, as people are considered to be as critical as the technical components for its success. PMID:21444819
Benchmarking a Visual-Basic based multi-component one-dimensional reactive transport modeling tool

NASA Astrophysics Data System (ADS)

Torlapati, Jagadish; Prabhakar Clement, T.

2013-01-01

We present the details of a comprehensive numerical modeling tool, RT1D, which can be used for simulating biochemical and geochemical reactive transport problems. The code can be run within the standard Microsoft EXCEL Visual Basic platform, and it does not require any additional software tools. The code can be easily adapted by others for simulating different types of laboratory-scale reactive transport experiments. We illustrate the capabilities of the tool by solving five benchmark problems with varying levels of reaction complexity. These literature-derived benchmarks are used to highlight the versatility of the code for solving a variety of practical reactive transport problems. The benchmarks are described in detail to provide a comprehensive database, which can be used by model developers to test other numerical codes. The VBA code presented in the study is a practical tool that can be used by laboratory researchers for analyzing both batch and column datasets within an EXCEL platform.
A Systems Model for Power Technology Assessment

NASA Technical Reports Server (NTRS)

Hoffman, David J.

2002-01-01

A computer model is under continuing development at NASA Glenn Research Center that enables first-order assessments of space power technology. The model, an evolution of NASA Glenn's Array Design Assessment Model (ADAM), is an Excel workbook that consists of numerous spreadsheets containing power technology performance data and sizing algorithms. Underlying the model is a number of databases that contain default values for various power generation, energy storage and power management and distribution component parameters. These databases are actively maintained by a team of systems analysts so that they contain state-of-art data as well as the most recent technology performance projections. Sizing of the power subsystems can be accomplished either by using an assumed mass specific power (W/kg) or energy (Wh/kg) or by a bottoms-up calculation that accounts for individual component performance and masses. The power generation, energy storage and power management and distribution subsystems are sized for given mission requirements for a baseline case and up to three alternatives. This allows four different power systems to be sized and compared using consistent assumptions and sizing algorithms. The component sizing models contained in the workbook are modular so that they can be easily maintained and updated. All significant input values have default values loaded from the databases that can be over-written by the user. The default data and sizing algorithms for each of the power subsystems are described in some detail. The user interface and workbook navigational features are also discussed. Finally, an example study case that illustrates the model's capability is presented.
DroSpeGe: rapid access database for new Drosophila species genomes.

PubMed

Gilbert, Donald G

2007-01-01

The Drosophila species comparative genome database DroSpeGe (http://insects.eugenes.org/DroSpeGe/) provides genome researchers with rapid, usable access to 12 new and old Drosophila genomes, since its inception in 2004. Scientists can use, with minimal computing expertise, the wealth of new genome information for developing new insights into insect evolution. New genome assemblies provided by several sequencing centers have been annotated with known model organism gene homologies and gene predictions to provided basic comparative data. TeraGrid supplies the shared cyberinfrastructure for the primary computations. This genome database includes homologies to Drosophila melanogaster and eight other eukaryote model genomes, and gene predictions from several groups. BLAST searches of the newest assemblies are integrated with genome maps. GBrowse maps provide detailed views of cross-species aligned genomes. BioMart provides for data mining of annotations and sequences. Common chromosome maps identify major synteny among species. Potential gain and loss of genes is suggested by Gene Ontology groupings for genes of the new species. Summaries of essential genome statistics include sizes, genes found and predicted, homology among genomes, phylogenetic trees of species and comparisons of several gene predictions for sensitivity and specificity in finding new and known genes.
The landslide database for Germany: Closing the gap at national level

NASA Astrophysics Data System (ADS)

Damm, Bodo; Klose, Martin

2015-11-01

The Federal Republic of Germany has long been among the few European countries that lack a national landslide database. Systematic collection and inventory of landslide data still has a long research history in Germany, but one focussed on the development of databases with local or regional coverage. This has changed in recent years with the launch of a database initiative aimed at closing the data gap existing at national level. The present paper reports on this project that is based on a landslide database which evolved over the last 15 years to a database covering large parts of Germany. A strategy of systematic retrieval, extraction, and fusion of landslide data is at the heart of the methodology, providing the basis for a database with a broad potential of application. The database offers a data pool of more than 4,200 landslide data sets with over 13,000 single data files and dates back to the 12th century. All types of landslides are covered by the database, which stores not only core attributes, but also various complementary data, including data on landslide causes, impacts, and mitigation. The current database migration to PostgreSQL/PostGIS is focused on unlocking the full scientific potential of the database, while enabling data sharing and knowledge transfer via a web GIS platform. In this paper, the goals and the research strategy of the database project are highlighted at first, with a summary of best practices in database development providing perspective. Next, the focus is on key aspects of the methodology, which is followed by the results of three case studies in the German Central Uplands. The case study results exemplify database application in the analysis of landslide frequency and causes, impact statistics, and landslide susceptibility modeling. Using the example of these case studies, strengths and weaknesses of the database are discussed in detail. The paper concludes with a summary of the database project with regard to previous achievements and the strategic roadmap.

Estimating nitrate emissions to surface water at regional and national scale: comparison of models using detailed regional and national-wide databases (France)

NASA Astrophysics Data System (ADS)

Dupas, R.; Gascuel-Odoux, C.; Durand, P.; Parnaudeau, V.

2012-04-01

The European Union (EU) Water Framework Directive (WFD) requires River Basin District managers to carry out an analysis of nutrient pressures and impacts, in order to evaluate the risk of water bodies failing to reach "good ecological status" and to identify those catchments where prioritized nonpoint-source control measures should be implemented. A model has been developed to estimate nitrate nonpoint-source emissions to surface water, using readily available data in France. It was inspired from US model SPARROW (Smith al., 1997) and European model GREEN (Grizzetti et al., 2008), i.e. statistical approaches consisting of linking nitrogen sources and catchments' land and rivers characteristics. The N-nitrate load (L) at the outlet of a catchment is expressed as: L= R*(B*Lsgw+Ldgw+PS)-denitlake Where denitlake is a denitrification factor for lakes and reservoirs, Lsgw is the shallow groundwater discharge to streams (derived from the base flow index and N surplus in kgN.ha-1.yr-1), Ldgw is the deep groundwater discharge to streams (derived from total runoff, the base flow index and deep groundwater N concentration), PS is point sources from domestic and industrial origin (kgN.ha-1.yr-1) and R and B are the river system and basin reduction factor, respectively. Besides calibrating and evaluating the model at a national scale, its predictive quality was compared with those of regionalized models in Brittany (Western France) and in the Seine river basin (Paris basin), where detailed regional databases are available. The national-scale model proved to provide robust predictions in most conditions encountered in France, as it fitted observed N-nitrate load with an efficiency of 0.69. Regionalization of the model reduced the standard error in the prediction of N-nitrate loads by about 19 Hence, the development of regionalized models should be advocated only after the trade-off between improvement of fit and degradation of parameters' estimation has come under scrutiny.
Oracle Applications Patch Administration Tool (PAT) Beta Version

DOE Office of Scientific and Technical Information (OSTI.GOV)

2002-01-04

PAT is a Patch Administration Tool that provides analysis, tracking, and management of Oracle Application patches. This includes capabilities as outlined below: Patch Analysis & Management Tool Outline of capabilities: Administration Patch Data Maintenance -- track Oracle Application patches applied to what database instance & machine Patch Analysis capture text files (readme.txt and driver files) form comparison detail report comparison detail PL/SQL package comparison detail SQL scripts detail JSP module comparison detail Parse and load the current applptch.txt (10.7) or load patch data from Oracle Application database patch tables (11i) Display Analysis -- Compare patch to be applied with currentmore » Oracle Application installed Appl_top code versions Patch Detail Module comparison detail Analyze and display one Oracle Application module patch. Patch Management -- automatic queue and execution of patches Administration Parameter maintenance -- setting for directory structure of Oracle Application appl_top Validation data maintenance -- machine names and instances to patch Operation Patch Data Maintenance Schedule a patch (queue for later execution) Run a patch (queue for immediate execution) Review the patch logs Patch Management Reports« less
[A relational database to store Poison Centers calls].

PubMed

Barelli, Alessandro; Biondi, Immacolata; Tafani, Chiara; Pellegrini, Aristide; Soave, Maurizio; Gaspari, Rita; Annetta, Maria Giuseppina

2006-01-01

Italian Poison Centers answer to approximately 100,000 calls per year. Potentially, this activity is a huge source of data for toxicovigilance and for syndromic surveillance. During the last decade, surveillance systems for early detection of outbreaks have drawn the attention of public health institutions due to the threat of terrorism and high-profile disease outbreaks. Poisoning surveillance needs the ongoing, systematic collection, analysis, interpretation, and dissemination of harmonised data about poisonings from all Poison Centers for use in public health action to reduce morbidity and mortality and to improve health. The entity-relationship model for a Poison Center relational database is extremely complex and not studied in detail. For this reason, not harmonised data collection happens among Italian Poison Centers. Entities are recognizable concepts, either concrete or abstract, such as patients and poisons, or events which have relevance to the database, such as calls. Connectivity and cardinality of relationships are complex as well. A one-to-many relationship exist between calls and patients: for one instance of entity calls, there are zero, one, or many instances of entity patients. At the same time, a one-to-many relationship exist between patients and poisons: for one instance of entity patients, there are zero, one, or many instances of entity poisons. This paper shows a relational model for a poison center database which allows the harmonised data collection of poison centers calls.
Modeling and visualizing borehole information on virtual globes using KML

NASA Astrophysics Data System (ADS)

Zhu, Liang-feng; Wang, Xi-feng; Zhang, Bing

2014-01-01

Advances in virtual globes and Keyhole Markup Language (KML) are providing the Earth scientists with the universal platforms to manage, visualize, integrate and disseminate geospatial information. In order to use KML to represent and disseminate subsurface geological information on virtual globes, we present an automatic method for modeling and visualizing a large volume of borehole information. Based on a standard form of borehole database, the method first creates a variety of borehole models with different levels of detail (LODs), including point placemarks representing drilling locations, scatter dots representing contacts and tube models representing strata. Subsequently, the level-of-detail based (LOD-based) multi-scale representation is constructed to enhance the efficiency of visualizing large numbers of boreholes. Finally, the modeling result can be loaded into a virtual globe application for 3D visualization. An implementation program, termed Borehole2KML, is developed to automatically convert borehole data into KML documents. A case study of using Borehole2KML to create borehole models in Shanghai shows that the modeling method is applicable to visualize, integrate and disseminate borehole information on the Internet. The method we have developed has potential use in societal service of geological information.
A case Study of Applying Object-Relational Persistence in Astronomy Data Archiving

NASA Astrophysics Data System (ADS)

Yao, S. S.; Hiriart, R.; Barg, I.; Warner, P.; Gasson, D.

2005-12-01

The NOAO Science Archive (NSA) team is developing a comprehensive domain model to capture the science data in the archive. Java and an object model derived from the domain model weil address the application layer of the archive system. However, since RDBMS is the best proven technology for data management, the challenge is the paradigm mismatch between the object and the relational models. Transparent object-relational mapping (ORM) persistence is a successful solution to this challenge. In the data modeling and persistence implementation of NSA, we are using Hibernate, a well-accepted ORM tool, to bridge the object model in the business tier and the relational model in the database tier. Thus, the database is isolated from the Java application. The application queries directly on objects using a DBMS-independent object-oriented query API, which frees the application developers from the low level JDBC and SQL so that they can focus on the domain logic. We present the detailed design of the NSA R3 (Release 3) data model and object-relational persistence, including mapping, retrieving and caching. Persistence layer optimization and performance tuning will be analyzed. The system is being built on J2EE, so the integration of Hibernate into the EJB container and the transaction management are also explored.
Evolution of computational models in BioModels Database and the Physiome Model Repository.

PubMed

Scharm, Martin; Gebhardt, Tom; Touré, Vasundra; Bagnacani, Andrea; Salehzadeh-Yazdi, Ali; Wolkenhauer, Olaf; Waltemath, Dagmar

2018-04-12

A useful model is one that is being (re)used. The development of a successful model does not finish with its publication. During reuse, models are being modified, i.e. expanded, corrected, and refined. Even small changes in the encoding of a model can, however, significantly affect its interpretation. Our motivation for the present study is to identify changes in models and make them transparent and traceable. We analysed 13734 models from BioModels Database and the Physiome Model Repository. For each model, we studied the frequencies and types of updates between its first and latest release. To demonstrate the impact of changes, we explored the history of a Repressilator model in BioModels Database. We observed continuous updates in the majority of models. Surprisingly, even the early models are still being modified. We furthermore detected that many updates target annotations, which improves the information one can gain from models. To support the analysis of changes in model repositories we developed MoSt, an online tool for visualisations of changes in models. The scripts used to generate the data and figures for this study are available from GitHub https://github.com/binfalse/BiVeS-StatsGenerator and as a Docker image at https://hub.docker.com/r/binfalse/bives-statsgenerator/ . The website https://most.bio.informatik.uni-rostock.de/ provides interactive access to model versions and their evolutionary statistics. The reuse of models is still impeded by a lack of trust and documentation. A detailed and transparent documentation of all aspects of the model, including its provenance, will improve this situation. Knowledge about a model's provenance can avoid the repetition of mistakes that others already faced. More insights are gained into how the system evolves from initial findings to a profound understanding. We argue that it is the responsibility of the maintainers of model repositories to offer transparent model provenance to their users.
The Native Plant Propagation Protocol Database: 16 years of sharing information

Treesearch

R. Kasten Dumroese; Thomas D. Landis

2016-01-01

The Native Plant Propagation Protocol Database was launched in 2001 to provide an online mechanism for sharing information about growing native plants. It relies on plant propagators to upload their protocols (detailed directions for growing particular native plants) so that others may benefit from their experience. Currently the database has nearly 3000 protocols and...
An Efficient Method for the Retrieval of Objects by Topological Relations in Spatial Database Systems.

ERIC Educational Resources Information Center

Lin, P. L.; Tan, W. H.

2003-01-01

Presents a new method to improve the performance of query processing in a spatial database. Experiments demonstrated that performance of database systems can be improved because both the number of objects accessed and number of objects requiring detailed inspection are much less than those in the previous approach. (AEF)
Thoracolumbar spine fractures in frontal impact crashes.

PubMed

Pintar, Frank A; Yoganandan, Narayan; Maiman, Dennis J; Scarboro, Mark; Rudd, Rodney W

2012-01-01

There is currently no injury assessment for thoracic or lumbar spine fractures in the motor vehicle crash standards throughout the world. Compression-related thoracolumbar fractures are occurring in frontal impacts and yet the mechanism of injury is poorly understood. The objective of this investigation was to characterize these injuries using real world crash data from the US-DOT-NHTSA NASS-CDS and CIREN databases. Thoracic and lumbar AIS vertebral body fracture codes were searched for in the two databases. The NASS database was used to characterize population trends as a function of crash year and vehicle model year. The CIREN database was used to examine a case series in more detail. From the NASS database there were 2000-4000 occupants in frontal impacts with thoracic and lumbar vertebral body fractures per crash year. There was an increasing trend in incidence rate of thoracolumbar fractures in frontal impact crashes as a function of vehicle model year from 1986 to 2008; this was not the case for other crash types. From the CIREN database, the thoracolumbar spine was most commonly fractured at either the T12 or L1 level. Major, burst type fractures occurred predominantly at T12, L1 or L5; wedge fractures were most common at L1. Most CIREN occupants were belted; there were slightly more females involved; they were almost all in bucket seats; impact location occurred approximately half the time on the road and half off the road. The type of object struck also seemed to have some influence on fractured spine level, suggesting that the crash deceleration pulse may be influential in the type of compression vector that migrates up the spinal column. Future biomechanical studies are required to define mechanistically how these fractures are influenced by these many factors.
Evaluation of linking pavement related databases.

DOT National Transportation Integrated Search

2007-03-01

In general, the objectives of this study were to identify and solve various issues in linking pavement performance related database. The detailed objectives were: to evaluate the state-of-the-art in information technology for data integration and dat...
Review and assessment of turbulence models for hypersonic flows

NASA Astrophysics Data System (ADS)

Roy, Christopher J.; Blottner, Frederick G.

2006-10-01

Accurate aerodynamic prediction is critical for the design and optimization of hypersonic vehicles. Turbulence modeling remains a major source of uncertainty in the computational prediction of aerodynamic forces and heating for these systems. The first goal of this article is to update the previous comprehensive review of hypersonic shock/turbulent boundary-layer interaction experiments published in 1991 by Settles and Dodson (Hypersonic shock/boundary-layer interaction database. NASA CR 177577, 1991). In their review, Settles and Dodson developed a methodology for assessing experiments appropriate for turbulence model validation and critically surveyed the existing hypersonic experiments. We limit the scope of our current effort by considering only two-dimensional (2D)/axisymmetric flows in the hypersonic flow regime where calorically perfect gas models are appropriate. We extend the prior database of recommended hypersonic experiments (on four 2D and two 3D shock-interaction geometries) by adding three new geometries. The first two geometries, the flat plate/cylinder and the sharp cone, are canonical, zero-pressure gradient flows which are amenable to theory-based correlations, and these correlations are discussed in detail. The third geometry added is the 2D shock impinging on a turbulent flat plate boundary layer. The current 2D hypersonic database for shock-interaction flows thus consists of nine experiments on five different geometries. The second goal of this study is to review and assess the validation usage of various turbulence models on the existing experimental database. Here we limit the scope to one- and two-equation turbulence models where integration to the wall is used (i.e., we omit studies involving wall functions). A methodology for validating turbulence models is given, followed by an extensive evaluation of the turbulence models on the current hypersonic experimental database. A total of 18 one- and two-equation turbulence models are reviewed, and results of turbulence model assessments for the six models that have been extensively applied to the hypersonic validation database are compiled and presented in graphical form. While some of the turbulence models do provide reasonable predictions for the surface pressure, the predictions for surface heat flux are generally poor, and often in error by a factor of four or more. In the vast majority of the turbulence model validation studies we review, the authors fail to adequately address the numerical accuracy of the simulations (i.e., discretization and iterative error) and the sensitivities of the model predictions to freestream turbulence quantities or near-wall y+ mesh spacing. We recommend new hypersonic experiments be conducted which (1) measure not only surface quantities but also mean and fluctuating quantities in the interaction region and (2) provide careful estimates of both random experimental uncertainties and correlated bias errors for the measured quantities and freestream conditions. For the turbulence models, we recommend that a wide-range of turbulence models (including newer models) be re-examined on the current hypersonic experimental database, including the more recent experiments. Any future turbulence model validation efforts should carefully assess the numerical accuracy and model sensitivities. In addition, model corrections (e.g., compressibility corrections) should be carefully examined for their effects on a standard, low-speed validation database. Finally, as new experiments or direct numerical simulation data become available with information on mean and fluctuating quantities, they should be used to improve the turbulence models and thus increase their predictive capability.
Generating Modeling Data From Repeat-Dose Toxicity Reports

PubMed Central

López-Massaguer, Oriol; Pinto-Gil, Kevin; Sanz, Ferran; Amberg, Alexander; Anger, Lennart T; Stolte, Manuela; Ravagli, Carlo

2018-01-01

Abstract Over the past decades, pharmaceutical companies have conducted a large number of high-quality in vivo repeat-dose toxicity (RDT) studies for regulatory purposes. As part of the eTOX project, a high number of these studies have been compiled and integrated into a database. This valuable resource can be queried directly, but it can be further exploited to build predictive models. As the studies were originally conducted to investigate the properties of individual compounds, the experimental conditions across the studies are highly heterogeneous. Consequently, the original data required normalization/standardization, filtering, categorization and integration to make possible any data analysis (such as building predictive models). Additionally, the primary objectives of the RDT studies were to identify toxicological findings, most of which do not directly translate to in vivo endpoints. This article describes a method to extract datasets containing comparable toxicological properties for a series of compounds amenable for building predictive models. The proposed strategy starts with the normalization of the terms used within the original reports. Then, comparable datasets are extracted from the database by applying filters based on the experimental conditions. Finally, carefully selected profiles of toxicological findings are mapped to endpoints of interest, generating QSAR-like tables. In this work, we describe in detail the strategy and tools used for carrying out these transformations and illustrate its application in a data sample extracted from the eTOX database. The suitability of the resulting tables for developing hazard-predicting models was investigated by building proof-of-concept models for in vivo liver endpoints. PMID:29155963
Choosing a genome browser for a Model Organism Database: surveying the Maize community

PubMed Central

Sen, Taner Z.; Harper, Lisa C.; Schaeffer, Mary L.; Andorf, Carson M.; Seigfried, Trent E.; Campbell, Darwin A.; Lawrence, Carolyn J.

2010-01-01

As the B73 maize genome sequencing project neared completion, MaizeGDB began to integrate a graphical genome browser with its existing web interface and database. To ensure that maize researchers would optimally benefit from the potential addition of a genome browser to the existing MaizeGDB resource, personnel at MaizeGDB surveyed researchers’ needs. Collected data indicate that existing genome browsers for maize were inadequate and suggest implementation of a browser with quick interface and intuitive tools would meet most researchers’ needs. Here, we document the survey’s outcomes, review functionalities of available genome browser software platforms and offer our rationale for choosing the GBrowse software suite for MaizeGDB. Because the genome as represented within the MaizeGDB Genome Browser is tied to detailed phenotypic data, molecular marker information, available stocks, etc., the MaizeGDB Genome Browser represents a novel mechanism by which the researchers can leverage maize sequence information toward crop improvement directly. Database URL: http://gbrowse.maizegdb.org/ PMID:20627860
Root Systems of Individual Plants, and the Biotic and Abiotic Factors Controlling Their Depth and Distribution: a Synthesis Using a Global Database.

NASA Astrophysics Data System (ADS)

Tumber-Davila, S. J.; Schenk, H. J.; Jackson, R. B.

2017-12-01

This synthesis examines plant rooting distributions globally, by doubling the number of entries in the Root Systems of Individual Plants database (RSIP) created by Schenk and Jackson. Root systems influence many processes, including water and nutrient uptake and soil carbon storage. Root systems also mediate vegetation responses to changing climatic and environmental conditions. Therefore, a collective understanding of the importance of rooting systems to carbon sequestration, soil characteristics, hydrology, and climate, is needed. Current global models are limited by a poor understanding of the mechanisms affecting rooting, carbon stocks, and belowground biomass. This improved database contains an extensive bank of records describing the rooting system of individual plants, as well as detailed information on the climate and environment from which the observations are made. The expanded RSIP database will: 1) increase our understanding of rooting depths, lateral root spreads and above and belowground allometry; 2) improve the representation of plant rooting systems in Earth System Models; 3) enable studies of how climate change will alter and interact with plant species and functional groups in the future. We further focus on how plant rooting behavior responds to variations in climate and the environment, and create a model that can predict rooting behavior given a set of environmental conditions. Preliminary results suggest that high potential evapotranspiration and seasonality of precipitation are indicative of deeper rooting after accounting for plant growth form. When mapping predicted deep rooting by climate, we predict deepest rooting to occur in equatorial South America, Africa, and central India.
Mashup of Geo and Space Science Data Provided via Relational Databases in the Semantic Web

NASA Astrophysics Data System (ADS)

Ritschel, B.; Seelus, C.; Neher, G.; Iyemori, T.; Koyama, Y.; Yatagai, A. I.; Murayama, Y.; King, T. A.; Hughes, J. S.; Fung, S. F.; Galkin, I. A.; Hapgood, M. A.; Belehaki, A.

2014-12-01

The use of RDBMS for the storage and management of geo and space science data and/or metadata is very common. Although the information stored in tables is based on a data model and therefore well organized and structured, a direct mashup with RDF based data stored in triple stores is not possible. One solution of the problem consists in the transformation of the whole content into RDF structures and storage in triple stores. Another interesting way is the use of a specific system/service, such as e.g. D2RQ, for the access to relational database content as virtual, read only RDF graphs. The Semantic Web based -proof of concept- GFZ ISDC uses the triple store Virtuoso for the storage of general context information/metadata to geo and space science satellite and ground station data. There is information about projects, platforms, instruments, persons, product types, etc. available but no detailed metadata about the data granuals itself. Such important information, as e.g. start or end time or the detailed spatial coverage of a single measurement is stored in RDBMS tables of the ISDC catalog system only. In order to provide a seamless access to all available information about the granuals/data products a mashup of the different data resources (triple store and RDBMS) is necessary. This paper describes the use of D2RQ for a Semantic Web/SPARQL based mashup of relational databases used for ISDC data server but also for the access to IUGONET and/or ESPAS and further geo and space science data resources. RDBMS Relational Database Management System RDF Resource Description Framework SPARQL SPARQL Protocol And RDF Query Language D2RQ Accessing Relational Databases as Virtual RDF Graphs GFZ ISDC German Research Centre for Geosciences Information System and Data Center IUGONET Inter-university Upper Atmosphere Global Observation Network (Japanese project) ESPAS Near earth space data infrastructure for e-science (European Union funded project)
Global Precipitation Estimates from Cross-Track Passive Microwave Observations Using a Physically-Based Retrieval Scheme

NASA Technical Reports Server (NTRS)

Kidd, Chris; Matsui, Toshi; Chern, Jiundar; Mohr, Karen; Kummerow, Christian; Randel, Dave

2015-01-01

The estimation of precipitation across the globe from satellite sensors provides a key resource in the observation and understanding of our climate system. Estimates from all pertinent satellite observations are critical in providing the necessary temporal sampling. However, consistency in these estimates from instruments with different frequencies and resolutions is critical. This paper details the physically based retrieval scheme to estimate precipitation from cross-track (XT) passive microwave (PM) sensors on board the constellation satellites of the Global Precipitation Measurement (GPM) mission. Here the Goddard profiling algorithm (GPROF), a physically based Bayesian scheme developed for conically scanning (CS) sensors, is adapted for use with XT PM sensors. The present XT GPROF scheme utilizes a model-generated database to overcome issues encountered with an observational database as used by the CS scheme. The model database ensures greater consistency across meteorological regimes and surface types by providing a more comprehensive set of precipitation profiles. The database is corrected for bias against the CS database to ensure consistency in the final product. Statistical comparisons over western Europe and the United States show that the XT GPROF estimates are comparable with those from the CS scheme. Indeed, the XT estimates have higher correlations against surface radar data, while maintaining similar root-mean-square errors. Latitudinal profiles of precipitation show the XT estimates are generally comparable with the CS estimates, although in the southern midlatitudes the peak precipitation is shifted equatorward while over the Arctic large differences are seen between the XT and the CS retrievals.
Digital Earth system based river basin data integration

NASA Astrophysics Data System (ADS)

Zhang, Xin; Li, Wanqing; Lin, Chao

2014-12-01

Digital Earth is an integrated approach to build scientific infrastructure. The Digital Earth systems provide a three-dimensional visualization and integration platform for river basin data which include the management data, in situ observation data, remote sensing observation data and model output data. This paper studies the Digital Earth system based river basin data integration technology. Firstly, the construction of the Digital Earth based three-dimensional river basin data integration environment is discussed. Then the river basin management data integration technology is presented which is realized by general database access interface, web service and ActiveX control. Thirdly, the in situ data stored in database tables as records integration is realized with three-dimensional model of the corresponding observation apparatus display in the Digital Earth system by a same ID code. In the next two parts, the remote sensing data and the model output data integration technologies are discussed in detail. The application in the Digital Zhang River basin System of China shows that the method can effectively improve the using efficiency and visualization effect of the data.
The COPERNIC3 project: how AREVA is successfully developing an advanced global fuel rod performance code

DOE Office of Scientific and Technical Information (OSTI.GOV)

Garnier, Ch.; Mailhe, P.; Sontheimer, F.

2007-07-01

Fuel performance is a key factor for minimizing operating costs in nuclear plants. One of the important aspects of fuel performance is fuel rod design, based upon reliable tools able to verify the safety of current fuel solutions, prevent potential issues in new core managements and guide the invention of tomorrow's fuels. AREVA is developing its future global fuel rod code COPERNIC3, which is able to calculate the thermal-mechanical behavior of advanced fuel rods in nuclear plants. Some of the best practices to achieve this goal are described, by reviewing the three pillars of a fuel rod code: the database,more » the modelling and the computer and numerical aspects. At first, the COPERNIC3 database content is described, accompanied by the tools developed to effectively exploit the data. Then is given an overview of the main modelling aspects, by emphasizing the thermal, fission gas release and mechanical sub-models. In the last part, numerical solutions are detailed in order to increase the computational performance of the code, with a presentation of software configuration management solutions. (authors)« less
novPTMenzy: a database for enzymes involved in novel post-translational modifications

PubMed Central

Khater, Shradha; Mohanty, Debasisa

2015-01-01

With the recent discoveries of novel post-translational modifications (PTMs) which play important roles in signaling and biosynthetic pathways, identification of such PTM catalyzing enzymes by genome mining has been an area of major interest. Unlike well-known PTMs like phosphorylation, glycosylation, SUMOylation, no bioinformatics resources are available for enzymes associated with novel and unusual PTMs. Therefore, we have developed the novPTMenzy database which catalogs information on the sequence, structure, active site and genomic neighborhood of experimentally characterized enzymes involved in five novel PTMs, namely AMPylation, Eliminylation, Sulfation, Hydroxylation and Deamidation. Based on a comprehensive analysis of the sequence and structural features of these known PTM catalyzing enzymes, we have created Hidden Markov Model profiles for the identification of similar PTM catalyzing enzymatic domains in genomic sequences. We have also created predictive rules for grouping them into functional subfamilies and deciphering their mechanistic details by structure-based analysis of their active site pockets. These analytical modules have been made available as user friendly search interfaces of novPTMenzy database. It also has a specialized analysis interface for some PTMs like AMPylation and Eliminylation. The novPTMenzy database is a unique resource that can aid in discovery of unusual PTM catalyzing enzymes in newly sequenced genomes. Database URL: http://www.nii.ac.in/novptmenzy.html PMID:25931459
MIPS: curated databases and comprehensive secondary data resources in 2010.

PubMed

Mewes, H Werner; Ruepp, Andreas; Theis, Fabian; Rattei, Thomas; Walter, Mathias; Frishman, Dmitrij; Suhre, Karsten; Spannagl, Manuel; Mayer, Klaus F X; Stümpflen, Volker; Antonov, Alexey

2011-01-01

The Munich Information Center for Protein Sequences (MIPS at the Helmholtz Center for Environmental Health, Neuherberg, Germany) has many years of experience in providing annotated collections of biological data. Selected data sets of high relevance, such as model genomes, are subjected to careful manual curation, while the bulk of high-throughput data is annotated by automatic means. High-quality reference resources developed in the past and still actively maintained include Saccharomyces cerevisiae, Neurospora crassa and Arabidopsis thaliana genome databases as well as several protein interaction data sets (MPACT, MPPI and CORUM). More recent projects are PhenomiR, the database on microRNA-related phenotypes, and MIPS PlantsDB for integrative and comparative plant genome research. The interlinked resources SIMAP and PEDANT provide homology relationships as well as up-to-date and consistent annotation for 38,000,000 protein sequences. PPLIPS and CCancer are versatile tools for proteomics and functional genomics interfacing to a database of compilations from gene lists extracted from literature. A novel literature-mining tool, EXCERBT, gives access to structured information on classified relations between genes, proteins, phenotypes and diseases extracted from Medline abstracts by semantic analysis. All databases described here, as well as the detailed descriptions of our projects can be accessed through the MIPS WWW server (http://mips.helmholtz-muenchen.de).

MIPS: curated databases and comprehensive secondary data resources in 2010

PubMed Central

Mewes, H. Werner; Ruepp, Andreas; Theis, Fabian; Rattei, Thomas; Walter, Mathias; Frishman, Dmitrij; Suhre, Karsten; Spannagl, Manuel; Mayer, Klaus F.X.; Stümpflen, Volker; Antonov, Alexey

2011-01-01

The Munich Information Center for Protein Sequences (MIPS at the Helmholtz Center for Environmental Health, Neuherberg, Germany) has many years of experience in providing annotated collections of biological data. Selected data sets of high relevance, such as model genomes, are subjected to careful manual curation, while the bulk of high-throughput data is annotated by automatic means. High-quality reference resources developed in the past and still actively maintained include Saccharomyces cerevisiae, Neurospora crassa and Arabidopsis thaliana genome databases as well as several protein interaction data sets (MPACT, MPPI and CORUM). More recent projects are PhenomiR, the database on microRNA-related phenotypes, and MIPS PlantsDB for integrative and comparative plant genome research. The interlinked resources SIMAP and PEDANT provide homology relationships as well as up-to-date and consistent annotation for 38 000 000 protein sequences. PPLIPS and CCancer are versatile tools for proteomics and functional genomics interfacing to a database of compilations from gene lists extracted from literature. A novel literature-mining tool, EXCERBT, gives access to structured information on classified relations between genes, proteins, phenotypes and diseases extracted from Medline abstracts by semantic analysis. All databases described here, as well as the detailed descriptions of our projects can be accessed through the MIPS WWW server (http://mips.helmholtz-muenchen.de). PMID:21109531
In-Memory Graph Databases for Web-Scale Data

DOE Office of Scientific and Technical Information (OSTI.GOV)

Castellana, Vito G.; Morari, Alessandro; Weaver, Jesse R.

RDF databases have emerged as one of the most relevant way for organizing, integrating, and managing expo- nentially growing, often heterogeneous, and not rigidly structured data for a variety of scientific and commercial fields. In this paper we discuss the solutions integrated in GEMS (Graph database Engine for Multithreaded Systems), a software framework for implementing RDF databases on commodity, distributed-memory high-performance clusters. Unlike the majority of current RDF databases, GEMS has been designed from the ground up to primarily employ graph-based methods. This is reflected in all the layers of its stack. The GEMS framework is composed of: a SPARQL-to-C++more » compiler, a library of data structures and related methods to access and modify them, and a custom runtime providing lightweight software multithreading, network messages aggregation and a partitioned global address space. We provide an overview of the framework, detailing its component and how they have been closely designed and customized to address issues of graph methods applied to large-scale datasets on clusters. We discuss in details the principles that enable automatic translation of the queries (expressed in SPARQL, the query language of choice for RDF databases) to graph methods, and identify differences with respect to other RDF databases.« less
Analysis, requirements and development of a collaborative social and medical services data model.

PubMed

Bobroff, R B; Petermann, C A; Beck, J R; Buffone, G J

1994-01-01

In any medical and social service setting, patient data must be readily shared among multiple providers for delivery of expeditious, quality care. This paper describes the development and implementation of a generalized social and medical services data model for an ambulatory population. The model, part of the Collaborative Social and Medical Services System Project, is based on the data needs of the Baylor College of Medicine Teen Health Clinics and follows the guidelines of the ANSI HISPP/MSDS JWG for a Common Data Model. Design details were determined by informal staff interviews, operational observations, and examination of clinic guidelines and forms. The social and medical services data model is implemented using object-oriented data modeling techniques and will be implemented in C++ using an Object-Oriented Database Management System.
REDIdb: the RNA editing database.

PubMed

Picardi, Ernesto; Regina, Teresa Maria Rosaria; Brennicke, Axel; Quagliariello, Carla

2007-01-01

The RNA Editing Database (REDIdb) is an interactive, web-based database created and designed with the aim to allocate RNA editing events such as substitutions, insertions and deletions occurring in a wide range of organisms. The database contains both fully and partially sequenced DNA molecules for which editing information is available either by experimental inspection (in vitro) or by computational detection (in silico). Each record of REDIdb is organized in a specific flat-file containing a description of the main characteristics of the entry, a feature table with the editing events and related details and a sequence zone with both the genomic sequence and the corresponding edited transcript. REDIdb is a relational database in which the browsing and identification of editing sites has been simplified by means of two facilities to either graphically display genomic or cDNA sequences or to show the corresponding alignment. In both cases, all editing sites are highlighted in colour and their relative positions are detailed by mousing over. New editing positions can be directly submitted to REDIdb after a user-specific registration to obtain authorized secure access. This first version of REDIdb database stores 9964 editing events and can be freely queried at http://biologia.unical.it/py_script/search.html.
Access to digital library databases in higher education: design problems and infrastructural gaps.

PubMed

Oswal, Sushil K

2014-01-01

After defining accessibility and usability, the author offers a broad survey of the research studies on digital content databases which have thus far primarily depended on data drawn from studies conducted by sighted researchers with non-disabled users employing screen readers and low vision devices. This article aims at producing a detailed description of the difficulties confronted by blind screen reader users with online library databases which now hold most of the academic, peer-reviewed journal and periodical content essential for research and teaching in higher education. The approach taken here is borrowed from descriptive ethnography which allows the author to create a complete picture of the accessibility and usability problems faced by an experienced academic user of digital library databases and screen readers. The author provides a detailed analysis of the different aspects of accessibility issues in digital databases under several headers with a special focus on full-text PDF files. The author emphasizes that long-term studies with actual, blind screen reader users employing both qualitative and computerized research tools can yield meaningful data for the designers and developers to improve these databases to a level that they begin to provide an equal access to the blind.
Building information models for astronomy projects

NASA Astrophysics Data System (ADS)

Ariño, Javier; Murga, Gaizka; Campo, Ramón; Eletxigerra, Iñigo; Ampuero, Pedro

2012-09-01

A Building Information Model is a digital representation of physical and functional characteristics of a building. BIMs represent the geometrical characteristics of the Building, but also properties like bills of quantities, definition of COTS components, status of material in the different stages of the project, project economic data, etc. The BIM methodology, which is well established in the Architecture Engineering and Construction (AEC) domain for conventional buildings, has been brought one step forward in its application for Astronomical/Scientific facilities. In these facilities steel/concrete structures have high dynamic and seismic requirements, M&E installations are complex and there is a large amount of special equipment and mechanisms involved as a fundamental part of the facility. The detail design definition is typically implemented by different design teams in specialized design software packages. In order to allow the coordinated work of different engineering teams, the overall model, and its associated engineering database, is progressively integrated using a coordination and roaming software which can be used before starting construction phase for checking interferences, planning the construction sequence, studying maintenance operation, reporting to the project office, etc. This integrated design & construction approach will allow to efficiently plan construction sequence (4D). This is a powerful tool to study and analyze in detail alternative construction sequences and ideally coordinate the work of different construction teams. In addition engineering, construction and operational database can be linked to the virtual model (6D), what gives to the end users a invaluable tool for the lifecycle management, as all the facility information can be easily accessed, added or replaced. This paper presents the BIM methodology as implemented by IDOM with the E-ELT and ATST Enclosures as application examples.
Description of a Website Resource for Turbulence Modeling Verification and Validation

NASA Technical Reports Server (NTRS)

Rumsey, Christopher L.; Smith, Brian R.; Huang, George P.

2010-01-01

The activities of the Turbulence Model Benchmarking Working Group - which is a subcommittee of the American Institute of Aeronautics and Astronautics (AIAA) Fluid Dynamics Technical Committee - are described. The group s main purpose is to establish a web-based repository for Reynolds-averaged Navier-Stokes turbulence model documentation, including verification and validation cases. This turbulence modeling resource has been established based on feedback from a survey on what is needed to achieve consistency and repeatability in turbulence model implementation and usage, and to document and disseminate information on new turbulence models or improvements to existing models. The various components of the website are described in detail: description of turbulence models, turbulence model readiness rating system, verification cases, validation cases, validation databases, and turbulence manufactured solutions. An outline of future plans of the working group is also provided.
Computer-aided auditing of prescription drug claims.

PubMed

Iyengar, Vijay S; Hermiz, Keith B; Natarajan, Ramesh

2014-09-01

We describe a methodology for identifying and ranking candidate audit targets from a database of prescription drug claims. The relevant audit targets may include various entities such as prescribers, patients and pharmacies, who exhibit certain statistical behavior indicative of potential fraud and abuse over the prescription claims during a specified period of interest. Our overall approach is consistent with related work in statistical methods for detection of fraud and abuse, but has a relative emphasis on three specific aspects: first, based on the assessment of domain experts, certain focus areas are selected and data elements pertinent to the audit analysis in each focus area are identified; second, specialized statistical models are developed to characterize the normalized baseline behavior in each focus area; and third, statistical hypothesis testing is used to identify entities that diverge significantly from their expected behavior according to the relevant baseline model. The application of this overall methodology to a prescription claims database from a large health plan is considered in detail.
Comparison of regression coefficient and GIS-based methodologies for regional estimates of forest soil carbon stocks.

PubMed

Campbell, J Elliott; Moen, Jeremie C; Ney, Richard A; Schnoor, Jerald L

2008-03-01

Estimates of forest soil organic carbon (SOC) have applications in carbon science, soil quality studies, carbon sequestration technologies, and carbon trading. Forest SOC has been modeled using a regression coefficient methodology that applies mean SOC densities (mass/area) to broad forest regions. A higher resolution model is based on an approach that employs a geographic information system (GIS) with soil databases and satellite-derived landcover images. Despite this advancement, the regression approach remains the basis of current state and federal level greenhouse gas inventories. Both approaches are analyzed in detail for Wisconsin forest soils from 1983 to 2001, applying rigorous error-fixing algorithms to soil databases. Resulting SOC stock estimates are 20% larger when determined using the GIS method rather than the regression approach. Average annual rates of increase in SOC stocks are 3.6 and 1.0 million metric tons of carbon per year for the GIS and regression approaches respectively.
Research on the ITOC based scheduling system for ship piping production

NASA Astrophysics Data System (ADS)

Li, Rui; Liu, Yu-Jun; Hamada, Kunihiro

2010-12-01

Manufacturing of ship piping systems is one of the major production activities in shipbuilding. The schedule of pipe production has an important impact on the master schedule of shipbuilding. In this research, the ITOC concept was introduced to solve the scheduling problems of a piping factory, and an intelligent scheduling system was developed. The system, in which a product model, an operation model, a factory model, and a knowledge database of piping production were integrated, automated the planning process and production scheduling. Details of the above points were discussed. Moreover, an application of the system in a piping factory, which achieved a higher level of performance as measured by tardiness, lead time, and inventory, was demonstrated.
NASA-Langley Web-Based Operational Real-time Cloud Retrieval Products from Geostationary Satellites

NASA Technical Reports Server (NTRS)

Palikonda, Rabindra; Minnis, Patrick; Spangenberg, Douglas A.; Khaiyer, Mandana M.; Nordeen, Michele L.; Ayers, Jeffrey K.; Nguyen, Louis; Yi, Yuhong; Chan, P. K.; Trepte, Qing Z.;

2006-01-01

At NASA Langley Research Center (LaRC), radiances from multiple satellites are analyzed in near real-time to produce cloud products over many regions on the globe. These data are valuable for many applications such as diagnosing aircraft icing conditions and model validation and assimilation. This paper presents an overview of the multiple products available, summarizes the content of the online database, and details web-based satellite browsers and tools to access satellite imagery and products.

Natural Environment Definition for Exploration Missions

NASA Technical Reports Server (NTRS)

Suggs, Robert M.

2017-01-01

A comprehensive set of environment definitions is necessary from the beginning of the development of a spacecraft. The Cross-Program Design Specification for Natural Environments (DSNE, SLS-SPEC-159) was originally developed during the Constellation Program and then modified and matured for the Exploration Programs (Space Launch System and Orion). The DSNE includes launch, low-earth orbit (LEO), trans-lunar, cislunar, interplanetary, and entry/descent/landing environments developed from standard and custom databases and models. The space environments section will be discussed in detail.
Natural Environment Definition for Exploration Missions

NASA Technical Reports Server (NTRS)

Suggs, Rob

2017-01-01

A comprehensive set of environment definitions is necessary from the beginning of the development of a spacecraft. The Cross-Program Design Specification for Natural Environments (DSNE, SLS-SPEC-159) was originally developed during the Constellation Program and then modified and matured for the Exploration Programs (Space Launch System and Orion). The DSNE includes launch, low-earth orbit, trans-lunar, cis-lunar, interplanetary, and entry/descent/landing environments developed from standard and custom databases and models. The space environments section will be discussed in detail.
Genotyping and interpretation of STR-DNA: Low-template, mixtures and database matches-Twenty years of research and development.

PubMed

Gill, Peter; Haned, Hinda; Bleka, Oyvind; Hansson, Oskar; Dørum, Guro; Egeland, Thore

2015-09-01

The introduction of Short Tandem Repeat (STR) DNA was a revolution within a revolution that transformed forensic DNA profiling into a tool that could be used, for the first time, to create National DNA databases. This transformation would not have been possible without the concurrent development of fluorescent automated sequencers, combined with the ability to multiplex several loci together. Use of the polymerase chain reaction (PCR) increased the sensitivity of the method to enable the analysis of a handful of cells. The first multiplexes were simple: 'the quad', introduced by the defunct UK Forensic Science Service (FSS) in 1994, rapidly followed by a more discriminating 'six-plex' (Second Generation Multiplex) in 1995 that was used to create the world's first national DNA database. The success of the database rapidly outgrew the functionality of the original system - by the year 2000 a new multiplex of ten-loci was introduced to reduce the chance of adventitious matches. The technology was adopted world-wide, albeit with different loci. The political requirement to introduce pan-European databases encouraged standardisation - the development of European Standard Set (ESS) of markers comprising twelve-loci is the latest iteration. Although development has been impressive, the methods used to interpret evidence have lagged behind. For example, the theory to interpret complex DNA profiles (low-level mixtures), had been developed fifteen years ago, but only in the past year or so, are the concepts starting to be widely adopted. A plethora of different models (some commercial and others non-commercial) have appeared. This has led to a confusing 'debate' about the 'best' to use. The different models available are described along with their advantages and disadvantages. A section discusses the development of national DNA databases, along with details of an associated controversy to estimate the strength of evidence of matches. Current methodology is limited to searches of complete profiles - another example where the interpretation of matches has not kept pace with development of theory. STRs have also transformed the area of Disaster Victim Identification (DVI) which frequently requires kinship analysis. However, genotyping efficiency is complicated by complex, degraded DNA profiles. Finally, there is now a detailed understanding of the causes of stochastic effects that cause DNA profiles to exhibit the phenomena of drop-out and drop-in, along with artefacts such as stutters. The phenomena discussed include: heterozygote balance; stutter; degradation; the effect of decreasing quantities of DNA; the dilution effect. Copyright © 2015 Elsevier Ireland Ltd. All rights reserved.
ProbOnto: ontology and knowledge base of probability distributions.

PubMed

Swat, Maciej J; Grenon, Pierre; Wimalaratne, Sarala

2016-09-01

Probability distributions play a central role in mathematical and statistical modelling. The encoding, annotation and exchange of such models could be greatly simplified by a resource providing a common reference for the definition of probability distributions. Although some resources exist, no suitably detailed and complex ontology exists nor any database allowing programmatic access. ProbOnto, is an ontology-based knowledge base of probability distributions, featuring more than 80 uni- and multivariate distributions with their defining functions, characteristics, relationships and re-parameterization formulas. It can be used for model annotation and facilitates the encoding of distribution-based models, related functions and quantities. http://probonto.org mjswat@ebi.ac.uk Supplementary data are available at Bioinformatics online. © The Author 2016. Published by Oxford University Press.
Yaquina Bay, Oregon, Intertidal Sediment Temperature Database, 1998 - 2006.

EPA Science Inventory

Detailed, long term sediment temperature records were obtained and compiled in a database to determine the influence of daily, monthly, seasonal and annual temperature variation on eelgrass distribution across the intertidal habitat in Yaquina Bay, Oregon. Both currently and hi...
Data tables for the 1994 National Transit Database report year

DOT National Transportation Integrated Search

1995-12-01

The Data Tables For the 1994 National Transit Database Report Year is one of three publications also referred to as the National Transit Databse Reporting System. The report provides detailed summaries of financial and operating data submitted to FTA...
Use of disease risk scores in pharmacoepidemiologic studies.

PubMed

Arbogast, Patrick G; Ray, Wayne A

2009-02-01

Automated databases are increasingly used in pharmacoepidemiologic studies. These databases include records of prescribed medications and encounters with medical care providers from which one can construct very detailed surrogate measures for both drug exposure and covariates that are potential confounders. Often it is possible to track day-by-day changes in these variables. However, while this information is often critical for study success, its volume can pose challenges for statistical analysis. One common approach is the use of propensity scores. An alternative approach is to construct a disease risk score. This is analogous to the propensity score in that it calculates a summary measure from the covariates. However, the disease risk score estimates the probability or rate of disease occurrence conditional on being unexposed. The association between exposure and disease is then estimated adjusting for the disease risk score in place of the individual covariates. This review describes the use of disease risk scores in pharmacoepidemiologic studies, and includes a brief discussion of their history, a more detailed description of their construction and use, a summary of simulation studies comparing their performance vis-á-vis traditional models, a comparison of their utility with that of propensity scores, and some further topics for future research.
A new universal, standardized implant database for product identification: a unique tool for arthroplasty registries.

PubMed

Blömer, Wilhelm; Steinbrück, Arnd; Schröder, Christian; Grothaus, Franz-Josef; Melsheimer, Oliver; Mannel, Henrich; Forkel, Gerhard; Eilers, Thomas; Liebs, Thoralf R; Hassenpflug, Joachim; Jansson, Volkmar

2015-07-01

Every joint registry aims to improve patient care by identifying implants that have an inferior performance. For this reason, each registry records the implant name that has been used in the individual patient. In most registries, a paper-based approach has been utilized for this purpose. However, in addition to being time-consuming, this approach does not account for the fact that failure patterns are not necessarily implant specific but can be associated with design features that are used in a number of implants. Therefore, we aimed to develop and evaluate an implant product library that allows both time saving barcode scanning on site in the hospital for the registration of the implant components and a detailed description of implant specifications. A task force consisting of representatives of the German Arthroplasty Registry, industry, and computer specialists agreed on a solution that allows barcode scanning of implant components and that also uses a detailed standardized classification describing arthroplasty components. The manufacturers classified all their components that are sold in Germany according to this classification. The implant database was analyzed regarding the completeness of components by algorithms and real-time data. The implant library could be set up successfully. At this point, the implant database includes more than 38,000 items, of which all were classified by the manufacturers according to the predefined scheme. Using patient data from the German Arthroplasty Registry, several errors in the database were detected, all of which were corrected by the respective implant manufacturers. The implant library that was developed for the German Arthroplasty Registry allows not only on-site barcode scanning for the registration of the implant components but also its classification tree allows a sophisticated analysis regarding implant characteristics, regardless of brand or manufacturer. The database is maintained by the implant manufacturers, thereby allowing registries to focus their resources on other areas of research. The database might represent a possible global model, which might encourage harmonization between joint replacement registries enabling comparisons between joint replacement registries.
[Study on the automatic parameters identification of water pipe network model].

PubMed

Jia, Hai-Feng; Zhao, Qi-Feng

2010-01-01

Based on the problems analysis on development and application of water pipe network model, the model parameters automatic identification is regarded as a kernel bottleneck of model's application in water supply enterprise. The methodology of water pipe network model parameters automatic identification based on GIS and SCADA database is proposed. Then the kernel algorithm of model parameters automatic identification is studied, RSA (Regionalized Sensitivity Analysis) is used for automatic recognition of sensitive parameters, and MCS (Monte-Carlo Sampling) is used for automatic identification of parameters, the detail technical route based on RSA and MCS is presented. The module of water pipe network model parameters automatic identification is developed. At last, selected a typical water pipe network as a case, the case study on water pipe network model parameters automatic identification is conducted and the satisfied results are achieved.

A method to implement fine-grained access control for personal health records through standard relational database queries.

PubMed

Sujansky, Walter V; Faus, Sam A; Stone, Ethan; Brennan, Patricia Flatley

2010-10-01

Online personal health records (PHRs) enable patients to access, manage, and share certain of their own health information electronically. This capability creates the need for precise access-controls mechanisms that restrict the sharing of data to that intended by the patient. The authors describe the design and implementation of an access-control mechanism for PHR repositories that is modeled on the eXtensible Access Control Markup Language (XACML) standard, but intended to reduce the cognitive and computational complexity of XACML. The authors implemented the mechanism entirely in a relational database system using ANSI-standard SQL statements. Based on a set of access-control rules encoded as relational table rows, the mechanism determines via a single SQL query whether a user who accesses patient data from a specific application is authorized to perform a requested operation on a specified data object. Testing of this query on a moderately large database has demonstrated execution times consistently below 100ms. The authors include the details of the implementation, including algorithms, examples, and a test database as Supplementary materials. Copyright © 2010 Elsevier Inc. All rights reserved.
ASM Based Synthesis of Handwritten Arabic Text Pages

PubMed Central

Al-Hamadi, Ayoub; Elzobi, Moftah; El-etriby, Sherif; Ghoneim, Ahmed

2015-01-01

Document analysis tasks, as text recognition, word spotting, or segmentation, are highly dependent on comprehensive and suitable databases for training and validation. However their generation is expensive in sense of labor and time. As a matter of fact, there is a lack of such databases, which complicates research and development. This is especially true for the case of Arabic handwriting recognition, that involves different preprocessing, segmentation, and recognition methods, which have individual demands on samples and ground truth. To bypass this problem, we present an efficient system that automatically turns Arabic Unicode text into synthetic images of handwritten documents and detailed ground truth. Active Shape Models (ASMs) based on 28046 online samples were used for character synthesis and statistical properties were extracted from the IESK-arDB database to simulate baselines and word slant or skew. In the synthesis step ASM based representations are composed to words and text pages, smoothed by B-Spline interpolation and rendered considering writing speed and pen characteristics. Finally, we use the synthetic data to validate a segmentation method. An experimental comparison with the IESK-arDB database encourages to train and test document analysis related methods on synthetic samples, whenever no sufficient natural ground truthed data is available. PMID:26295059
Gene: a gene-centered information resource at NCBI.

PubMed

Brown, Garth R; Hem, Vichet; Katz, Kenneth S; Ovetsky, Michael; Wallin, Craig; Ermolaeva, Olga; Tolstoy, Igor; Tatusova, Tatiana; Pruitt, Kim D; Maglott, Donna R; Murphy, Terence D

2015-01-01

The National Center for Biotechnology Information's (NCBI) Gene database (www.ncbi.nlm.nih.gov/gene) integrates gene-specific information from multiple data sources. NCBI Reference Sequence (RefSeq) genomes for viruses, prokaryotes and eukaryotes are the primary foundation for Gene records in that they form the critical association between sequence and a tracked gene upon which additional functional and descriptive content is anchored. Additional content is integrated based on the genomic location and RefSeq transcript and protein sequence data. The content of a Gene record represents the integration of curation and automated processing from RefSeq, collaborating model organism databases, consortia such as Gene Ontology, and other databases within NCBI. Records in Gene are assigned unique, tracked integers as identifiers. The content (citations, nomenclature, genomic location, gene products and their attributes, phenotypes, sequences, interactions, variation details, maps, expression, homologs, protein domains and external databases) is available via interactive browsing through NCBI's Entrez system, via NCBI's Entrez programming utilities (E-Utilities and Entrez Direct) and for bulk transfer by FTP. Published by Oxford University Press on behalf of Nucleic Acids Research 2014. This work is written by (a) US Government employee(s) and is in the public domain in the US.
Protein structure database search and evolutionary classification.

PubMed

Yang, Jinn-Moon; Tung, Chi-Hua

2006-01-01

As more protein structures become available and structural genomics efforts provide structural models in a genome-wide strategy, there is a growing need for fast and accurate methods for discovering homologous proteins and evolutionary classifications of newly determined structures. We have developed 3D-BLAST, in part, to address these issues. 3D-BLAST is as fast as BLAST and calculates the statistical significance (E-value) of an alignment to indicate the reliability of the prediction. Using this method, we first identified 23 states of the structural alphabet that represent pattern profiles of the backbone fragments and then used them to represent protein structure databases as structural alphabet sequence databases (SADB). Our method enhanced BLAST as a search method, using a new structural alphabet substitution matrix (SASM) to find the longest common substructures with high-scoring structured segment pairs from an SADB database. Using personal computers with Intel Pentium4 (2.8 GHz) processors, our method searched more than 10 000 protein structures in 1.3 s and achieved a good agreement with search results from detailed structure alignment methods. [3D-BLAST is available at http://3d-blast.life.nctu.edu.tw].
ASM Based Synthesis of Handwritten Arabic Text Pages.

PubMed

Dinges, Laslo; Al-Hamadi, Ayoub; Elzobi, Moftah; El-Etriby, Sherif; Ghoneim, Ahmed

2015-01-01

Document analysis tasks, as text recognition, word spotting, or segmentation, are highly dependent on comprehensive and suitable databases for training and validation. However their generation is expensive in sense of labor and time. As a matter of fact, there is a lack of such databases, which complicates research and development. This is especially true for the case of Arabic handwriting recognition, that involves different preprocessing, segmentation, and recognition methods, which have individual demands on samples and ground truth. To bypass this problem, we present an efficient system that automatically turns Arabic Unicode text into synthetic images of handwritten documents and detailed ground truth. Active Shape Models (ASMs) based on 28046 online samples were used for character synthesis and statistical properties were extracted from the IESK-arDB database to simulate baselines and word slant or skew. In the synthesis step ASM based representations are composed to words and text pages, smoothed by B-Spline interpolation and rendered considering writing speed and pen characteristics. Finally, we use the synthetic data to validate a segmentation method. An experimental comparison with the IESK-arDB database encourages to train and test document analysis related methods on synthetic samples, whenever no sufficient natural ground truthed data is available.
EKPD: a hierarchical database of eukaryotic protein kinases and protein phosphatases.

PubMed

Wang, Yongbo; Liu, Zexian; Cheng, Han; Gao, Tianshun; Pan, Zhicheng; Yang, Qing; Guo, Anyuan; Xue, Yu

2014-01-01

We present here EKPD (http://ekpd.biocuckoo.org), a hierarchical database of eukaryotic protein kinases (PKs) and protein phosphatases (PPs), the key molecules responsible for the reversible phosphorylation of proteins that are involved in almost all aspects of biological processes. As extensive experimental and computational efforts have been carried out to identify PKs and PPs, an integrative resource with detailed classification and annotation information would be of great value for both experimentalists and computational biologists. In this work, we first collected 1855 PKs and 347 PPs from the scientific literature and various public databases. Based on previously established rationales, we classified all of the known PKs and PPs into a hierarchical structure with three levels, i.e. group, family and individual PK/PP. There are 10 groups with 149 families for the PKs and 10 groups with 33 families for the PPs. We constructed 139 and 27 Hidden Markov Model profiles for PK and PP families, respectively. Then we systematically characterized ∼50,000 PKs and >10,000 PPs in eukaryotes. In addition, >500 PKs and >400 PPs were computationally identified by ortholog search. Finally, the online service of the EKPD database was implemented in PHP + MySQL + JavaScript.
DOE Office of Scientific and Technical Information (OSTI.GOV)

Rayl, K.D.; Gaasterland, T.

This paper presents an overview of the purpose, content, and design of a subset of the currently available biological databases, with an emphasis on protein databases. Databases included in this summary are 3D-ALI, Berlin RNA databank, Blocks, DSSP, EMBL Nucleotide Database, EMP, ENZYME, FSSP, GDB, GenBank, HSSP, LiMB, PDB, PIR, PKCDD, ProSite, and SWISS-PROT. The goal is to provide a starting point for researchers who wish to take advantage of the myriad available databases. Rather than providing a complete explanation of each database, we present its content and form by explaining the details of typical entries. Pointers to more completemore » ``user guides`` are included, along with general information on where to search for a new database.« less
Structure prediction and analysis of MxaF from obligate, facultative and restricted facultative methylobacterium.

PubMed

Singh, Raghvendra Pratap; Singh, Ram Nageena; Srivastava, Manish K; Srivastava, Alok Kumar; Kumar, Sudheer; Dubey, Ramesh Chandra; Sharma, Arun Kumar

2012-01-01

Methylobacteria are ubiquitous in the biosphere which are capable of growing on C1 compounds such as formate, formaldehyde, methanol and methylamine as well as on a wide range of multi-carbon growth substrates such as C2, C3 and C4 compounds due to the methylotrophic enzymes methanol dehydrogenase (MDH). MDH is performing these functions with the help of a key protein mxaF. Unfortunately, detailed structural analysis and homology modeling of mxaF is remains undefined. Hence, the objective of this research is the characterization and three dimensional modeling of mxaF protein from three different methylotrophs by using I-TASSER server. The predicted model were further optimize and validate by Profile 3D, Errat, Verifiy3-D and PROCHECK server. Predicted and best evaluated models have been successfully deposited to PMDB database with PMDB ID PM0077505, PM0077506 and PM0077507. Active site identification revealed 11, 13 and 14 putative functional site residues in respected models. It may play a major role during protein-protein, and protein-cofactor interactions. This study can provide us an ab-initio and detail information to understand the structure, mechanism of action and regulation of mxaF protein.
Structure prediction and analysis of MxaF from obligate, facultative and restricted facultative methylobacterium

PubMed Central

Singh, Raghvendra Pratap; Singh, Ram Nageena; Srivastava, Manish K; Srivastava, Alok Kumar; Kumar, Sudheer; Dubey, Ramesh Chandra; Sharma, Arun Kumar

2012-01-01

Methylobacteria are ubiquitous in the biosphere which are capable of growing on C1 compounds such as formate, formaldehyde, methanol and methylamine as well as on a wide range of multi-carbon growth substrates such as C2, C3 and C4 compounds due to the methylotrophic enzymes methanol dehydrogenase (MDH). MDH is performing these functions with the help of a key protein mxaF. Unfortunately, detailed structural analysis and homology modeling of mxaF is remains undefined. Hence, the objective of this research is the characterization and three dimensional modeling of mxaF protein from three different methylotrophs by using I-TASSER server. The predicted model were further optimize and validate by Profile 3D, Errat, Verifiy3-D and PROCHECK server. Predicted and best evaluated models have been successfully deposited to PMDB database with PMDB ID PM0077505, PM0077506 and PM0077507. Active site identification revealed 11, 13 and 14 putative functional site residues in respected models. It may play a major role during protein-protein, and protein-cofactor interactions. This study can provide us an ab-initio and detail information to understand the structure, mechanism of action and regulation of mxaF protein. PMID:23275704
Uncertainty in urban flood damage assessment due to urban drainage modelling and depth-damage curve estimation.

PubMed

Freni, G; La Loggia, G; Notaro, V

2010-01-01

Due to the increased occurrence of flooding events in urban areas, many procedures for flood damage quantification have been defined in recent decades. The lack of large databases in most cases is overcome by combining the output of urban drainage models and damage curves linking flooding to expected damage. The application of advanced hydraulic models as diagnostic, design and decision-making support tools has become a standard practice in hydraulic research and application. Flooding damage functions are usually evaluated by a priori estimation of potential damage (based on the value of exposed goods) or by interpolating real damage data (recorded during historical flooding events). Hydraulic models have undergone continuous advancements, pushed forward by increasing computer capacity. The details of the flooding propagation process on the surface and the details of the interconnections between underground and surface drainage systems have been studied extensively in recent years, resulting in progressively more reliable models. The same level of was advancement has not been reached with regard to damage curves, for which improvements are highly connected to data availability; this remains the main bottleneck in the expected flooding damage estimation. Such functions are usually affected by significant uncertainty intrinsically related to the collected data and to the simplified structure of the adopted functional relationships. The present paper aimed to evaluate this uncertainty by comparing the intrinsic uncertainty connected to the construction of the damage-depth function to the hydraulic model uncertainty. In this way, the paper sought to evaluate the role of hydraulic model detail level in the wider context of flood damage estimation. This paper demonstrated that the use of detailed hydraulic models might not be justified because of the higher computational cost and the significant uncertainty in damage estimation curves. This uncertainty occurs mainly because a large part of the total uncertainty is dependent on depth-damage curves. Improving the estimation of these curves may provide better results in term of uncertainty reduction than the adoption of detailed hydraulic models.
Electric power and the global economy: Advances in database construction and sector representation

NASA Astrophysics Data System (ADS)

Peters, Jeffrey C.

The electricity sector plays a crucial role in the global economy. The sector is a major consumer of fossil fuel resources, producer of greenhouse gas emissions, and an important indicator and correlate of economic development. As such, the sector is a primary target for policy-makers seeking to address these issues. The sector is also experiencing rapid technological change in generation (e.g. renewables), primary inputs (e.g. horizontal drilling and hydraulic fracturing), and end-use efficiency. This dissertation seeks to further our understanding of the role of the electricity sector as part of the dynamic global energy-economy, which requires significant research advances in both database construction and modeling techniques. Chapter 2 identifies useful engineering-level data and presents a novel matrix balancing method for integrating these data in global economic databases. Chapter 3 demonstrates the relationship between matrix balancing method and modeling results, and Chapter 4 presents the full construction methodology for GTAP-Power, the foremost, publicly-available global computable general equilibrium database. Chapter 5 presents an electricity-detailed computational equilibrium model that explicitly and endogenously captures capacity utilization, capacity expansion, and their interdependency - important aspects of technological substitution in the electricity sector. The individual, but interrelated, research contributions to database construction and electricity modeling in computational equilibrium are placed in the context of analyzing the US EPA Clean Power Plan (CPP) CO 2 target of 32 percent reduction of CO2 emissions in the US electricity sector from a 2005 baseline by 2030. Assuming current fuel prices, the model predicts an almost 28 percent CO2 reduction without further policy intervention. Next, a carbon tax and investment subsidies for renewable technologies to meet the CPP full targets are imposed and compared (Chapter 6). The carbon tax achieves the target via both utilization and expansion, while the renewable investment subsidies lead to over-expansion and compromises some of the possibilities via utilization. In doing so, this dissertation furthers our understanding of the role of the electricity sector as part of the dynamic global energy-economy.
Improving sand and gravel utilization and land-use planning. - 3D-modelling gravel resources with geospatial data.

NASA Astrophysics Data System (ADS)

Rolstad Libach, Lars; Wolden, Knut; Dagestad, Atle; Eskil Larsen, Bjørn

2017-04-01

The Norwegian aggregate industry produces approximately 14 million tons of sand and gravel aggregates annually to a value of approximately 100 million Euros. Utilization of aggregates are often linked to land-use conflicts and complex environmental impacts at the extraction site. These topics are managed on a local municipal level in Norway. The Geological Survey of Norway has a database and a web map service with information about sand and gravel deposits with considerable volumes and an importance evaluation. Some of the deposits covers large areas where the land-use conflicts are high. To ease and improve land-use planning, safeguard other important resources like groundwater and sustainable utilization of sand and gravel resources - there is a need for more detailed information of already mapped important resources. Detailed 3D-models of gravel deposits is a tool for a better land-use- and resource management. By combining seismic, GPR and resistivity geophysical profile data, borehole data, quaternary maps and lidar surface data, it has been possible to make 3D-models of deposits and to further research the possibilities for distinguishing different qualities and volumes. Good datasets and a detailed resource map is a prerequisite to assess geological resources for planners, extractors and neighbours. Future challenges lies in use of, often old, geophysical data, and combining these. What kind of information is it possible to grasp from depth-data that actually argues for a more detailed delineation of resources?
Database interfaces on NASA's heterogeneous distributed database system

NASA Technical Reports Server (NTRS)

Huang, S. H. S.

1986-01-01

The purpose of the ORACLE interface is to enable the DAVID program to submit queries and transactions to databases running under the ORACLE DBMS. The interface package is made up of several modules. The progress of these modules is described below. The two approaches used in implementing the interface are also discussed. Detailed discussion of the design of the templates is shown and concluding remarks are presented.
GAMBIT: the global and modular beyond-the-standard-model inference tool

NASA Astrophysics Data System (ADS)

Athron, Peter; Balazs, Csaba; Bringmann, Torsten; Buckley, Andy; Chrząszcz, Marcin; Conrad, Jan; Cornell, Jonathan M.; Dal, Lars A.; Dickinson, Hugh; Edsjö, Joakim; Farmer, Ben; Gonzalo, Tomás E.; Jackson, Paul; Krislock, Abram; Kvellestad, Anders; Lundberg, Johan; McKay, James; Mahmoudi, Farvah; Martinez, Gregory D.; Putze, Antje; Raklev, Are; Ripken, Joachim; Rogan, Christopher; Saavedra, Aldo; Savage, Christopher; Scott, Pat; Seo, Seon-Hee; Serra, Nicola; Weniger, Christoph; White, Martin; Wild, Sebastian

2017-11-01

We describe the open-source global fitting package GAMBIT: the Global And Modular Beyond-the-Standard-Model Inference Tool. GAMBIT combines extensive calculations of observables and likelihoods in particle and astroparticle physics with a hierarchical model database, advanced tools for automatically building analyses of essentially any model, a flexible and powerful system for interfacing to external codes, a suite of different statistical methods and parameter scanning algorithms, and a host of other utilities designed to make scans faster, safer and more easily-extendible than in the past. Here we give a detailed description of the framework, its design and motivation, and the current models and other specific components presently implemented in GAMBIT. Accompanying papers deal with individual modules and present first GAMBIT results. GAMBIT can be downloaded from gambit.hepforge.org.
Potential of 3D City Models to assess flood vulnerability

NASA Astrophysics Data System (ADS)

Schröter, Kai; Bochow, Mathias; Schüttig, Martin; Nagel, Claus; Ross, Lutz; Kreibich, Heidi

2016-04-01

Vulnerability, as the product of exposure and susceptibility, is a key factor of the flood risk equation. Furthermore, the estimation of flood loss is very sensitive to the choice of the vulnerability model. Still, in contrast to elaborate hazard simulations, vulnerability is often considered in a simplified manner concerning the spatial resolution and geo-location of exposed objects as well as the susceptibility of these objects at risk. Usually, area specific potential flood loss is quantified on the level of aggregated land-use classes, and both hazard intensity and resistance characteristics of affected objects are represented in highly simplified terms. We investigate the potential of 3D City Models and spatial features derived from remote sensing data to improve the differentiation of vulnerability in flood risk assessment. 3D City Models are based on CityGML, an application scheme of the Geography Markup Language (GML), which represents the 3D geometry, 3D topology, semantics and appearance of objects on different levels of detail. As such, 3D City Models offer detailed spatial information which is useful to describe the exposure and to characterize the susceptibility of residential buildings at risk. This information is further consolidated with spatial features of the building stock derived from remote sensing data. Using this database a spatially detailed flood vulnerability model is developed by means of data-mining. Empirical flood damage data are used to derive and to validate flood susceptibility models for individual objects. We present first results from a prototype application in the city of Dresden, Germany. The vulnerability modeling based on 3D City Models and remote sensing data is compared i) to the generally accepted good engineering practice based on area specific loss potential and ii) to a highly detailed representation of flood vulnerability based on a building typology using urban structure types. Comparisons are drawn in terms of affected building area and estimated loss for a selection of inundation scenarios.
Spatially detailed water footprint assessment using the U.S. National Water-Economy Database

NASA Astrophysics Data System (ADS)

Ruddell, B. L.

2015-12-01

The new U.S. National Water-Economy Database (NWED) provides a complete picture of water use and trade in water-derived goods and services in the U.S. economy, by economic sector, at the county and metropolitan area scale. This data product provides for the first time a basis for spatially detailed calculations of water footprints and virtual water trade in the entire U.S.. This talk reviews the general patterns of U.S. water footprint and virtual water trade, at the county scale., and provides an opportunity for the community to discuss applications of this database for water resource policy and economics. The water footprints of irrigated agriculture and energy are specifically addressed, as well as overall patterns of water use in the economy.
A Score of the Ability of a Three-Dimensional Protein Model to Retrieve Its Own Sequence as a Quantitative Measure of Its Quality and Appropriateness

PubMed Central

Martínez-Castilla, León P.; Rodríguez-Sotres, Rogelio

2010-01-01

Background Despite the remarkable progress of bioinformatics, how the primary structure of a protein leads to a three-dimensional fold, and in turn determines its function remains an elusive question. Alignments of sequences with known function can be used to identify proteins with the same or similar function with high success. However, identification of function-related and structure-related amino acid positions is only possible after a detailed study of every protein. Folding pattern diversity seems to be much narrower than sequence diversity, and the amino acid sequences of natural proteins have evolved under a selective pressure comprising structural and functional requirements acting in parallel. Principal Findings The approach described in this work begins by generating a large number of amino acid sequences using ROSETTA [Dantas G et al. (2003) J Mol Biol 332:449–460], a program with notable robustness in the assignment of amino acids to a known three-dimensional structure. The resulting sequence-sets showed no conservation of amino acids at active sites, or protein-protein interfaces. Hidden Markov models built from the resulting sequence sets were used to search sequence databases. Surprisingly, the models retrieved from the database sequences belonged to proteins with the same or a very similar function. Given an appropriate cutoff, the rate of false positives was zero. According to our results, this protocol, here referred to as Rd.HMM, detects fine structural details on the folding patterns, that seem to be tightly linked to the fitness of a structural framework for a specific biological function. Conclusion Because the sequence of the native protein used to create the Rd.HMM model was always amongst the top hits, the procedure is a reliable tool to score, very accurately, the quality and appropriateness of computer-modeled 3D-structures, without the need for spectroscopy data. However, Rd.HMM is very sensitive to the conformational features of the models' backbone. PMID:20830209
Learning lessons from Natech accidents - the eNATECH accident database

NASA Astrophysics Data System (ADS)

Krausmann, Elisabeth; Girgin, Serkan

2016-04-01

When natural hazards impact industrial facilities that house or process hazardous materials, fires, explosions and toxic releases can occur. This type of accident is commonly referred to as Natech accident. In order to prevent the recurrence of accidents or to better mitigate their consequences, lessons-learned type studies using available accident data are usually carried out. Through post-accident analysis, conclusions can be drawn on the most common damage and failure modes and hazmat release paths, particularly vulnerable storage and process equipment, and the hazardous materials most commonly involved in these types of accidents. These analyses also lend themselves to identifying technical and organisational risk-reduction measures that require improvement or are missing. Industrial accident databases are commonly used for retrieving sets of Natech accident case histories for further analysis. These databases contain accident data from the open literature, government authorities or in-company sources. The quality of reported information is not uniform and exhibits different levels of detail and accuracy. This is due to the difficulty of finding qualified information sources, especially in situations where accident reporting by the industry or by authorities is not compulsory, e.g. when spill quantities are below the reporting threshold. Data collection has then to rely on voluntary record keeping often by non-experts. The level of detail is particularly non-uniform for Natech accident data depending on whether the consequences of the Natech event were major or minor, and whether comprehensive information was available for reporting. In addition to the reporting bias towards high-consequence events, industrial accident databases frequently lack information on the severity of the triggering natural hazard, as well as on failure modes that led to the hazmat release. This makes it difficult to reconstruct the dynamics of the accident and renders the development of equipment vulnerability models linking the natural-hazard severity to the observed damage almost impossible. As a consequence, the European Commission has set up the eNATECH database for the systematic collection of Natech accident data and near misses. The database exhibits the more sophisticated accident representation required to capture the characteristics of Natech events and is publicly accessible at http://enatech.jrc.ec.europa.eu. This presentation outlines the general lessons-learning process, introduces the eNATECH database and its specific structure, and discusses natural-hazard specific lessons learned and features common to Natech accidents triggered by different natural hazards.
GIS applications for military operations in coastal zones

USGS Publications Warehouse

Fleming, S.; Jordan, T.; Madden, M.; Usery, E.L.; Welch, R.

2009-01-01

In order to successfully support current and future US military operations in coastal zones, geospatial information must be rapidly integrated and analyzed to meet ongoing force structure evolution and new mission directives. Coastal zones in a military-operational environment are complex regions that include sea, land and air features that demand high-volume databases of extreme detail within relatively narrow geographic corridors. Static products in the form of analog maps at varying scales traditionally have been used by military commanders and their operational planners. The rapidly changing battlefield of 21st Century warfare, however, demands dynamic mapping solutions. Commercial geographic information system (GIS) software for military-specific applications is now being developed and employed with digital databases to provide customized digital maps of variable scale, content and symbolization tailored to unique demands of military units. Research conducted by the Center for Remote Sensing and Mapping Science at the University of Georgia demonstrated the utility of GIS-based analysis and digital map creation when developing large-scale (1:10,000) products from littoral warfare databases. The methodology employed-selection of data sources (including high resolution commercial images and Lidar), establishment of analysis/modeling parameters, conduct of vehicle mobility analysis, development of models and generation of products (such as a continuous sea-land DEM and geo-visualization of changing shorelines with tidal levels)-is discussed. Based on observations and identified needs from the National Geospatial-Intelligence Agency, formerly the National Imagery and Mapping Agency, and the Department of Defense, prototype GIS models for military operations in sea, land and air environments were created from multiple data sets of a study area at US Marine Corps Base Camp Lejeune, North Carolina. Results of these models, along with methodologies for developing large-scale littoral warfare databases, aid the National Geospatial-Intelligence Agency in meeting littoral warfare analysis, modeling and map generation requirements for US military organizations. ?? 2008 International Society for Photogrammetry and Remote Sensing, Inc. (ISPRS).
GIS applications for military operations in coastal zones

NASA Astrophysics Data System (ADS)

Fleming, S.; Jordan, T.; Madden, M.; Usery, E. L.; Welch, R.

In order to successfully support current and future US military operations in coastal zones, geospatial information must be rapidly integrated and analyzed to meet ongoing force structure evolution and new mission directives. Coastal zones in a military-operational environment are complex regions that include sea, land and air features that demand high-volume databases of extreme detail within relatively narrow geographic corridors. Static products in the form of analog maps at varying scales traditionally have been used by military commanders and their operational planners. The rapidly changing battlefield of 21st Century warfare, however, demands dynamic mapping solutions. Commercial geographic information system (GIS) software for military-specific applications is now being developed and employed with digital databases to provide customized digital maps of variable scale, content and symbolization tailored to unique demands of military units. Research conducted by the Center for Remote Sensing and Mapping Science at the University of Georgia demonstrated the utility of GIS-based analysis and digital map creation when developing large-scale (1:10,000) products from littoral warfare databases. The methodology employed-selection of data sources (including high resolution commercial images and Lidar), establishment of analysis/modeling parameters, conduct of vehicle mobility analysis, development of models and generation of products (such as a continuous sea-land DEM and geo-visualization of changing shorelines with tidal levels)-is discussed. Based on observations and identified needs from the National Geospatial-Intelligence Agency, formerly the National Imagery and Mapping Agency, and the Department of Defense, prototype GIS models for military operations in sea, land and air environments were created from multiple data sets of a study area at US Marine Corps Base Camp Lejeune, North Carolina. Results of these models, along with methodologies for developing large-scale littoral warfare databases, aid the National Geospatial-Intelligence Agency in meeting littoral warfare analysis, modeling and map generation requirements for US military organizations.

Use of Patient Registries and Administrative Datasets for the Study of Pediatric Cancer

PubMed Central

Rice, Henry E.; Englum, Brian R.; Gulack, Brian C.; Adibe, Obinna O.; Tracy, Elizabeth T.; Kreissman, Susan G.; Routh, Jonathan C.

2015-01-01

Analysis of data from large administrative databases and patient registries is increasingly being used to study childhood cancer care, although the value of these data sources remains unclear to many clinicians. Interpretation of large databases requires a thorough understanding of how the dataset was designed, how data were collected, and how to assess data quality. This review will detail the role of administrative databases and registry databases for the study of childhood cancer, tools to maximize information from these datasets, and recommendations to improve the use of these databases for the study of pediatric oncology. PMID:25807938
Use of large electronic health record databases for environmental epidemiology studies.

EPA Science Inventory

Background: Electronic health records (EHRs) are a ubiquitous component of the United States healthcare system and capture nearly all data collected in a clinic or hospital setting. EHR databases are attractive for secondary data analysis as they may contain detailed clinical rec...
RiceAtlas, a spatial database of global rice calendars and production.

PubMed

Laborte, Alice G; Gutierrez, Mary Anne; Balanza, Jane Girly; Saito, Kazuki; Zwart, Sander J; Boschetti, Mirco; Murty, M V R; Villano, Lorena; Aunario, Jorrel Khalil; Reinke, Russell; Koo, Jawoo; Hijmans, Robert J; Nelson, Andrew

2017-05-30

Knowing where, when, and how much rice is planted and harvested is crucial information for understanding the effects of policy, trade, and global and technological change on food security. We developed RiceAtlas, a spatial database on the seasonal distribution of the world's rice production. It consists of data on rice planting and harvesting dates by growing season and estimates of monthly production for all rice-producing countries. Sources used for planting and harvesting dates include global and regional databases, national publications, online reports, and expert knowledge. Monthly production data were estimated based on annual or seasonal production statistics, and planting and harvesting dates. RiceAtlas has 2,725 spatial units. Compared with available global crop calendars, RiceAtlas is nearly ten times more spatially detailed and has nearly seven times more spatial units, with at least two seasons of calendar data, making RiceAtlas the most comprehensive and detailed spatial database on rice calendar and production.
Low Cost Comprehensive Microcomputer-Based Medical History Database Acquisition

PubMed Central

Buchan, Robert R. C.

1980-01-01

A carefully detailed, comprehensive medical history database is the fundamental essence of patient-physician interaction. Computer generated medical history acquisition has repeatedly been shown to be highly acceptable to both patient and physician while consistantly providing a superior product. Cost justification of machine derived problem and history databases, however, has in the past been marginal, at best. Routine use of the technology has therefore been limited to large clinics, university hospitals and federal installations where feasible volume applications are supported by endowment, research funds or taxes. This paper summarizes the use of a unique low cost device which marries advanced microprocessor technology with random access, variable-frame film projection techniques to acquire a detailed comprehensive medical history database. Preliminary data are presented which compare patient, physician, and machine generated histories for content, discovery, compliance and acceptability. Results compare favorably with the findings in similar studies by a variety of authors. ImagesFigure 1Figure 2Figure 3Figure 4
Final Results of Shuttle MMOD Impact Database

NASA Technical Reports Server (NTRS)

Hyde, J. L.; Christiansen, E. L.; Lear, D. M.

2015-01-01

The Shuttle Hypervelocity Impact Database documents damage features on each Orbiter thought to be from micrometeoroids (MM) or orbital debris (OD). Data is divided into tables for crew module windows, payload bay door radiators and thermal protection systems along with other miscellaneous regions. The combined number of records in the database is nearly 3000. Each database record provides impact feature dimensions, location on the vehicle and relevant mission information. Additional detail on the type and size of particle that produced the damage site is provided when sampling data and definitive spectroscopic analysis results are available. Guidelines are described which were used in determining whether impact damage is from micrometeoroid or orbital debris impact based on the findings from scanning electron microscopy chemical analysis. Relationships assumed when converting from observed feature sizes in different shuttle materials to particle sizes will be presented. A small number of significant impacts on the windows, radiators and wing leading edge will be highlighted and discussed in detail, including the hypervelocity impact testing performed to estimate particle sizes that produced the damage.
LOD 1 VS. LOD 2 - Preliminary Investigations Into Differences in Mobile Rendering Performance

NASA Astrophysics Data System (ADS)

Ellul, C.; Altenbuchner, J.

2013-09-01

The increasing availability, size and detail of 3D City Model datasets has led to a challenge when rendering such data on mobile devices. Understanding the limitations to the usability of such models on these devices is particularly important given the broadening range of applications - such as pollution or noise modelling, tourism, planning, solar potential - for which these datasets and resulting visualisations can be utilized. Much 3D City Model data is created by extrusion of 2D topographic datasets, resulting in what is known as Level of Detail (LoD) 1 buildings - with flat roofs. However, in the UK the National Mapping Agency (the Ordnance Survey, OS) is now releasing test datasets to Level of Detail (LoD) 2 - i.e. including roof structures. These datasets are designed to integrate with the LoD 1 datasets provided by the OS, and provide additional detail in particular on larger buildings and in town centres. The availability of such integrated datasets at two different Levels of Detail permits investigation into the impact of the additional roof structures (and hence the display of a more realistic 3D City Model) on rendering performance on a mobile device. This paper describes preliminary work carried out to investigate this issue, for the test area of the city of Sheffield (in the UK Midlands). The data is stored in a 3D spatial database as triangles and then extracted and served as a web-based data stream which is queried by an App developed on the mobile device (using the Android environment, Java and OpenGL for graphics). Initial tests have been carried out on two dataset sizes, for the city centre and a larger area, rendering the data onto a tablet to compare results. Results of 52 seconds for rendering LoD 1 data, and 72 seconds for LoD 1 mixed with LoD 2 data, show that the impact of LoD 2 is significant.
Infrared Spectroscopy of Star Formation in Galactic and Extragalactic Regions

NASA Technical Reports Server (NTRS)

Smith, Howard A.; Hasan, Hashima (Technical Monitor)

2002-01-01

This report details work done in a project involving spectroscopic studies, including data analysis and modeling, of star-formation regions using an ensemble of archival space-based data including some from the Infrared Space Observatory's Long Wavelength Spectrometer and Short Wavelength Spectrometer, and other spectroscopic databases. We will include four kinds of regions: (1) disks around more evolved objects; (2) young, low or high mass pre-main sequence stars in star-formation regions; (3) star formation in external, bright IR (infrared) galaxies; and (4) the galactic center. During this period, work proceeded fully on track and on time. Details on workshops and conferences attended and research results are presented. A preprint article entitled 'The Far Infrared Lines of OH as Molecular Cloud Diagnostics' is included as an appendix.
A resource for benchmarking the usefulness of protein structure models.

PubMed

Carbajo, Daniel; Tramontano, Anna

2012-08-02

Increasingly, biologists and biochemists use computational tools to design experiments to probe the function of proteins and/or to engineer them for a variety of different purposes. The most effective strategies rely on the knowledge of the three-dimensional structure of the protein of interest. However it is often the case that an experimental structure is not available and that models of different quality are used instead. On the other hand, the relationship between the quality of a model and its appropriate use is not easy to derive in general, and so far it has been analyzed in detail only for specific application. This paper describes a database and related software tools that allow testing of a given structure based method on models of a protein representing different levels of accuracy. The comparison of the results of a computational experiment on the experimental structure and on a set of its decoy models will allow developers and users to assess which is the specific threshold of accuracy required to perform the task effectively. The ModelDB server automatically builds decoy models of different accuracy for a given protein of known structure and provides a set of useful tools for their analysis. Pre-computed data for a non-redundant set of deposited protein structures are available for analysis and download in the ModelDB database. IMPLEMENTATION, AVAILABILITY AND REQUIREMENTS: Project name: A resource for benchmarking the usefulness of protein structure models. Project home page: http://bl210.caspur.it/MODEL-DB/MODEL-DB_web/MODindex.php.Operating system(s): Platform independent. Programming language: Perl-BioPerl (program); mySQL, Perl DBI and DBD modules (database); php, JavaScript, Jmol scripting (web server). Other requirements: Java Runtime Environment v1.4 or later, Perl, BioPerl, CPAN modules, HHsearch, Modeller, LGA, NCBI Blast package, DSSP, Speedfill (Surfnet) and PSAIA. License: Free. Any restrictions to use by non-academics: No.
Development of an "Alert Framework" Based on the Practices in the Medical Front.

PubMed

Sakata, Takuya; Araki, Kenji; Yamazaki, Tomoyoshi; Kawano, Koichi; Maeda, Minoru; Kushima, Muneo; Araki, Sanae

2018-05-09

At the University of Miyazaki Hospital (UMH), we have accumulated and semantically structured a vast amount of medical information since the activation of the electronic health record system approximately 10 years ago. With this medical information, we have decided to develop an alert system for aiding in medical treatment. The purpose of this investigation is to not only to integrate an alert framework into the electronic heath record system, but also to formulate a modeling method of this knowledge. A trial alert framework was developed for the staff in various occupational categories at the UMH. Based on findings of subsequent interviews, a more detailed and upgraded alert framework was constructed, resulting in the final model. Based on our current findings, an alert framework was developed with four major items. Based on the analysis of the medical practices from the trial model, it has been concluded that there are four major risk patterns that trigger the alert. Furthermore, the current alert framework contains detailed definitions which are easily substituted into the database, leading to easy implementation of the electronic health records.
Evaluation of the flame propagation within an SI engine using flame imaging and LES

NASA Astrophysics Data System (ADS)

He, Chao; Kuenne, Guido; Yildar, Esra; van Oijen, Jeroen; di Mare, Francesca; Sadiki, Amsini; Ding, Carl-Philipp; Baum, Elias; Peterson, Brian; Böhm, Benjamin; Janicka, Johannes

2017-11-01

This work shows experiments and simulations of the fired operation of a spark ignition engine with port-fuelled injection. The test rig considered is an optically accessible single cylinder engine specifically designed at TU Darmstadt for the detailed investigation of in-cylinder processes and model validation. The engine was operated under lean conditions using iso-octane as a substitute for gasoline. Experiments have been conducted to provide a sound database of the combustion process. A planar flame imaging technique has been applied within the swirl- and tumble-planes to provide statistical information on the combustion process to complement a pressure-based comparison between simulation and experiments. This data is then analysed and used to assess the large eddy simulation performed within this work. For the simulation, the engine code KIVA has been extended by the dynamically thickened flame model combined with chemistry reduction by means of pressure dependent tabulation. Sixty cycles have been simulated to perform a statistical evaluation. Based on a detailed comparison with the experimental data, a systematic study has been conducted to obtain insight into the most crucial modelling uncertainties.
Estimation of 1945 to 1957 food consumption

DOE Office of Scientific and Technical Information (OSTI.GOV)

Anderson, D.M.; Bates, D.J.; Marsh, T.L.

This report details the methods used and the results of the study on the estimated historic levels of food consumption by individuals in the Hanford Environmental Dose Reconstruction (HEDR) study area from 1945--1957. This period includes the time of highest releases from Hanford and is the period for which data are being collected in the Hanford Thyroid Disease Study. These estimates provide the food-consumption inputs for the HEDR database of individual diets. This database will be an input file in the Hanford Environmental Dose Reconstruction Integrated Code (HEDRIC) computer model that will be used to calculate the radiation dose. Themore » report focuses on fresh milk, eggs, lettuce, and spinach. These foods were chosen because they have been found to be significant contributors to radiation dose based on the Technical Steering Panel dose decision level.« less
The Pfam protein families database

PubMed Central

Finn, Robert D.; Mistry, Jaina; Tate, John; Coggill, Penny; Heger, Andreas; Pollington, Joanne E.; Gavin, O. Luke; Gunasekaran, Prasad; Ceric, Goran; Forslund, Kristoffer; Holm, Liisa; Sonnhammer, Erik L. L.; Eddy, Sean R.; Bateman, Alex

2010-01-01

Pfam is a widely used database of protein families and domains. This article describes a set of major updates that we have implemented in the latest release (version 24.0). The most important change is that we now use HMMER3, the latest version of the popular profile hidden Markov model package. This software is ∼100 times faster than HMMER2 and is more sensitive due to the routine use of the forward algorithm. The move to HMMER3 has necessitated numerous changes to Pfam that are described in detail. Pfam release 24.0 contains 11 912 families, of which a large number have been significantly updated during the past two years. Pfam is available via servers in the UK (http://pfam.sanger.ac.uk/), the USA (http://pfam.janelia.org/) and Sweden (http://pfam.sbc.su.se/). PMID:19920124
Population and Activity of On-road Vehicles in MOVES2014 ...

EPA Pesticide Factsheets

This report describes the sources and derivation for on-road vehicle population and activity information and associated adjustments as stored in the MOVES2014 default databases. Motor Vehicle Emission Simulator, the MOVES2014 model, is a set of modeling tools for estimating emissions produced by on-road (cars, trucks, motorcycles, etc.) and nonroad (backhoes, lawnmowers, etc.) mobile sources. The national default activity information in MOVES2014 provides a reasonable basis for estimating national emissions. However, the uncertainties and variability in the default data contribute to the uncertainty in the resulting emission estimates. Properly characterizing emissions from the on-road vehicle subset requires a detailed understanding of the cars and trucks that make up the vehicle fleet and their patterns of operation. The MOVES model calculates emission inventories by multiplying emission rates by the appropriate emission-related activity, applying correction (adjustment) factors as needed to simulate specific situations, and then adding up the emissions from all sources (populations) and regions. This report describes the sources and derivation for on-road vehicle population and activity information and associated adjustments as stored in the MOVES2014 default databases. Motor Vehicle Emission Simulator, the MOVES2014 model, is a set of modeling tools for estimating emissions produced by on-road (cars, trucks, motorcycles, etc.) and nonroad (backhoes, law
An assembly process model based on object-oriented hierarchical time Petri Nets

NASA Astrophysics Data System (ADS)

Wang, Jiapeng; Liu, Shaoli; Liu, Jianhua; Du, Zenghui

2017-04-01

In order to improve the versatility, accuracy and integrity of the assembly process model of complex products, an assembly process model based on object-oriented hierarchical time Petri Nets is presented. A complete assembly process information model including assembly resources, assembly inspection, time, structure and flexible parts is established, and this model describes the static and dynamic data involved in the assembly process. Through the analysis of three-dimensional assembly process information, the assembly information is hierarchically divided from the whole, the local to the details and the subnet model of different levels of object-oriented Petri Nets is established. The communication problem between Petri subnets is solved by using message database, and it reduces the complexity of system modeling effectively. Finally, the modeling process is presented, and a five layer Petri Nets model is established based on the hoisting process of the engine compartment of a wheeled armored vehicle.
Numerical and Physical Aspects of Aerodynamic Flows

DTIC Science & Technology

1992-01-15

accretion was also measured. detailed description of the IRT can be found in This test program also provided a new database for reference 4. code...Deflection lift flows and to develop a validation database 8 Slat Deflection with practical geometries/conditions for emerging computational methods. This...be substantially improved by their developers in the absence of a quality database at realistic conditions for a practical airfoil. The work reported
WikiPEATia - a web based platform for assembling peatland data through ‘crowd sourcing’

NASA Astrophysics Data System (ADS)

Wisser, D.; Glidden, S.; Fieseher, C.; Treat, C. C.; Routhier, M.; Frolking, S. E.

2009-12-01

The Earth System Science community is realizing that peatlands are an important and unique terrestrial ecosystem that has not yet been well-integrated into large-scale earth system analyses. A major hurdle is the lack of accessible, geospatial data of peatland distribution, coupled with data on peatland properties (e.g., vegetation composition, peat depth, basal dates, soil chemistry, peatland class) at the global scale. This data, however, is available at the local scale. Although a comprehensive global database on peatlands probably lags similar data on more economically important ecosystems such as forests, grasslands, croplands, a large amount of field data have been collected over the past several decades. A few efforts have been made to map peatlands at large scales but existing data have not been assembled into a single geospatial database that is publicly accessible or do not depict data with a level of detail that is needed in the Earth System Science Community. A global peatland database would contribute to advances in a number of research fields such as hydrology, vegetation and ecosystem modeling, permafrost modeling, and earth system modeling. We present a Web 2.0 approach that uses state-of-the-art webserver and innovative online mapping technologies and is designed to create such a global database through ‘crowd-sourcing’. Primary functions of the online system include form-driven textual user input of peatland research metadata, spatial data input of peatland areas via a mapping interface, database editing and querying editing capabilities, as well as advanced visualization and data analysis tools. WikiPEATia provides an integrated information technology platform for assembling, integrating, and posting peatland-related geospatial datasets facilitates and encourages research community involvement. A successful effort will make existing peatland data much more useful to the research community, and will help to identify significant data gaps.
Influence of high-resolution surface databases on the modeling of local atmospheric circulation systems

NASA Astrophysics Data System (ADS)

Paiva, L. M. S.; Bodstein, G. C. R.; Pimentel, L. C. G.

2013-12-01

Large-eddy simulations are performed using the Advanced Regional Prediction System (ARPS) code at horizontal grid resolutions as fine as 300 m to assess the influence of detailed and updated surface databases on the modeling of local atmospheric circulation systems of urban areas with complex terrain. Applications to air pollution and wind energy are sought. These databases are comprised of 3 arc-sec topographic data from the Shuttle Radar Topography Mission, 10 arc-sec vegetation type data from the European Space Agency (ESA) GlobCover Project, and 30 arc-sec Leaf Area Index and Fraction of Absorbed Photosynthetically Active Radiation data from the ESA GlobCarbon Project. Simulations are carried out for the Metropolitan Area of Rio de Janeiro using six one-way nested-grid domains that allow the choice of distinct parametric models and vertical resolutions associated to each grid. ARPS is initialized using the Global Forecasting System with 0.5°-resolution data from the National Center of Environmental Prediction, which is also used every 3 h as lateral boundary condition. Topographic shading is turned on and two soil layers with depths of 0.01 and 1.0 m are used to compute the soil temperature and moisture budgets in all runs. Results for two simulated runs covering the period from 6 to 7 September 2007 are compared to surface and upper-air observational data to explore the dependence of the simulations on initial and boundary conditions, topographic and land-use databases and grid resolution. Our comparisons show overall good agreement between simulated and observed data and also indicate that the low resolution of the 30 arc-sec soil database from United States Geological Survey, the soil moisture and skin temperature initial conditions assimilated from the GFS analyses and the synoptic forcing on the lateral boundaries of the finer grids may affect an adequate spatial description of the meteorological variables.
Follicle Online: an integrated database of follicle assembly, development and ovulation.

PubMed

Hua, Juan; Xu, Bo; Yang, Yifan; Ban, Rongjun; Iqbal, Furhan; Cooke, Howard J; Zhang, Yuanwei; Shi, Qinghua

2015-01-01

Folliculogenesis is an important part of ovarian function as it provides the oocytes for female reproductive life. Characterizing genes/proteins involved in folliculogenesis is fundamental for understanding the mechanisms associated with this biological function and to cure the diseases associated with folliculogenesis. A large number of genes/proteins associated with folliculogenesis have been identified from different species. However, no dedicated public resource is currently available for folliculogenesis-related genes/proteins that are validated by experiments. Here, we are reporting a database 'Follicle Online' that provides the experimentally validated gene/protein map of the folliculogenesis in a number of species. Follicle Online is a web-based database system for storing and retrieving folliculogenesis-related experimental data. It provides detailed information for 580 genes/proteins (from 23 model organisms, including Homo sapiens, Mus musculus, Rattus norvegicus, Mesocricetus auratus, Bos Taurus, Drosophila and Xenopus laevis) that have been reported to be involved in folliculogenesis, POF (premature ovarian failure) and PCOS (polycystic ovary syndrome). The literature was manually curated from more than 43,000 published articles (till 1 March 2014). The Follicle Online database is implemented in PHP + MySQL + JavaScript and this user-friendly web application provides access to the stored data. In summary, we have developed a centralized database that provides users with comprehensive information about genes/proteins involved in folliculogenesis. This database can be accessed freely and all the stored data can be viewed without any registration. Database URL: http://mcg.ustc.edu.cn/sdap1/follicle/index.php © The Author(s) 2015. Published by Oxford University Press.
Follicle Online: an integrated database of follicle assembly, development and ovulation

PubMed Central

Hua, Juan; Xu, Bo; Yang, Yifan; Ban, Rongjun; Iqbal, Furhan; Zhang, Yuanwei; Shi, Qinghua

2015-01-01

Folliculogenesis is an important part of ovarian function as it provides the oocytes for female reproductive life. Characterizing genes/proteins involved in folliculogenesis is fundamental for understanding the mechanisms associated with this biological function and to cure the diseases associated with folliculogenesis. A large number of genes/proteins associated with folliculogenesis have been identified from different species. However, no dedicated public resource is currently available for folliculogenesis-related genes/proteins that are validated by experiments. Here, we are reporting a database ‘Follicle Online’ that provides the experimentally validated gene/protein map of the folliculogenesis in a number of species. Follicle Online is a web-based database system for storing and retrieving folliculogenesis-related experimental data. It provides detailed information for 580 genes/proteins (from 23 model organisms, including Homo sapiens, Mus musculus, Rattus norvegicus, Mesocricetus auratus, Bos Taurus, Drosophila and Xenopus laevis) that have been reported to be involved in folliculogenesis, POF (premature ovarian failure) and PCOS (polycystic ovary syndrome). The literature was manually curated from more than 43 000 published articles (till 1 March 2014). The Follicle Online database is implemented in PHP + MySQL + JavaScript and this user-friendly web application provides access to the stored data. In summary, we have developed a centralized database that provides users with comprehensive information about genes/proteins involved in folliculogenesis. This database can be accessed freely and all the stored data can be viewed without any registration. Database URL: http://mcg.ustc.edu.cn/sdap1/follicle/index.php PMID:25931457
Physics Based Model for Cryogenic Chilldown and Loading. Part IV: Code Structure

NASA Technical Reports Server (NTRS)

Luchinsky, D. G.; Smelyanskiy, V. N.; Brown, B.

2014-01-01

This is the fourth report in a series of technical reports that describe separated two-phase flow model application to the cryogenic loading operation. In this report we present the structure of the code. The code consists of five major modules: (1) geometry module; (2) solver; (3) material properties; (4) correlations; and finally (5) stability control module. The two key modules - solver and correlations - are further divided into a number of submodules. Most of the physics and knowledge databases related to the properties of cryogenic two-phase flow are included into the cryogenic correlations module. The functional form of those correlations is not well established and is a subject of extensive research. Multiple parametric forms for various correlations are currently available. Some of them are included into correlations module as will be described in details in a separate technical report. Here we describe the overall structure of the code and focus on the details of the solver and stability control modules.

Effective application of improved profit-mining algorithm for the interday trading model.

PubMed

Hsieh, Yu-Lung; Yang, Don-Lin; Wu, Jungpin

2014-01-01

Many real world applications of association rule mining from large databases help users make better decisions. However, they do not work well in financial markets at this time. In addition to a high profit, an investor also looks for a low risk trading with a better rate of winning. The traditional approach of using minimum confidence and support thresholds needs to be changed. Based on an interday model of trading, we proposed effective profit-mining algorithms which provide investors with profit rules including information about profit, risk, and winning rate. Since profit-mining in the financial market is still in its infant stage, it is important to detail the inner working of mining algorithms and illustrate the best way to apply them. In this paper we go into details of our improved profit-mining algorithm and showcase effective applications with experiments using real world trading data. The results show that our approach is practical and effective with good performance for various datasets.
Effective Application of Improved Profit-Mining Algorithm for the Interday Trading Model

PubMed Central

Wu, Jungpin

2014-01-01

Many real world applications of association rule mining from large databases help users make better decisions. However, they do not work well in financial markets at this time. In addition to a high profit, an investor also looks for a low risk trading with a better rate of winning. The traditional approach of using minimum confidence and support thresholds needs to be changed. Based on an interday model of trading, we proposed effective profit-mining algorithms which provide investors with profit rules including information about profit, risk, and winning rate. Since profit-mining in the financial market is still in its infant stage, it is important to detail the inner working of mining algorithms and illustrate the best way to apply them. In this paper we go into details of our improved profit-mining algorithm and showcase effective applications with experiments using real world trading data. The results show that our approach is practical and effective with good performance for various datasets. PMID:24688442
The relationship between inadvertent ingestion and dermal exposure pathways: a new integrated conceptual model and a database of dermal and oral transfer efficiencies.

PubMed

Gorman Ng, Melanie; Semple, Sean; Cherrie, John W; Christopher, Yvette; Northage, Christine; Tielemans, Erik; Veroughstraete, Violaine; Van Tongeren, Martie

2012-11-01

Occupational inadvertent ingestion exposure is ingestion exposure due to contact between the mouth and contaminated hands or objects. Although individuals are typically oblivious to their exposure by this route, it is a potentially significant source of occupational exposure for some substances. Due to the continual flux of saliva through the oral cavity and the non-specificity of biological monitoring to routes of exposure, direct measurement of exposure by the inadvertent ingestion route is challenging; predictive models may be required to assess exposure. The work described in this manuscript has been carried out as part of a project to develop a predictive model for estimating inadvertent ingestion exposure in the workplace. As inadvertent ingestion exposure mainly arises from hand-to-mouth contact, it is closely linked to dermal exposure. We present a new integrated conceptual model for dermal and inadvertent ingestion exposure that should help to increase our understanding of ingestion exposure and our ability to simultaneously estimate exposure by the dermal and ingestion routes. The conceptual model consists of eight compartments (source, air, surface contaminant layer, outer clothing contaminant layer, inner clothing contaminant layer, hands and arms layer, perioral layer, and oral cavity) and nine mass transport processes (emission, deposition, resuspension or evaporation, transfer, removal, redistribution, decontamination, penetration and/or permeation, and swallowing) that describe event-based movement of substances between compartments (e.g. emission, deposition, etc.). This conceptual model is intended to guide the development of predictive exposure models that estimate exposure from both the dermal and the inadvertent ingestion pathways. For exposure by these pathways the efficiency of transfer of materials between compartments (for example from surfaces to hands, or from hands to the mouth) are important determinants of exposure. A database of transfer efficiency data relevant for dermal and inadvertent ingestion exposure was developed, containing 534 empirically measured transfer efficiencies measured between 1980 and 2010 and reported in the peer-reviewed and grey literature. The majority of the reported transfer efficiencies (84%) relate to transfer between surfaces and hands, but the database also includes efficiencies for other transfer scenarios, including surface-to-glove, hand-to-mouth, and skin-to-skin. While the conceptual model can provide a framework for a predictive exposure assessment model, the database provides detailed information on transfer efficiencies between the various compartments. Together, the conceptual model and the database provide a basis for the development of a quantitative tool to estimate inadvertent ingestion exposure in the workplace.
Watershed Data Management (WDM) database for Salt Creek streamflow simulation, DuPage County, Illinois, water years 2005-11

USGS Publications Warehouse

Bera, Maitreyee

2014-01-01

The U.S. Geological Survey (USGS), in cooperation with DuPage County Stormwater Management Division, maintains a USGS database of hourly meteorologic and hydrologic data for use in a near real-time streamflow simulation system, which assists in the management and operation of reservoirs and other flood-control structures in the Salt Creek watershed in DuPage County, Illinois. Most of the precipitation data are collected from a tipping-bucket rain-gage network located in and near DuPage County. The other meteorologic data (wind speed, solar radiation, air temperature, and dewpoint temperature) are collected at Argonne National Laboratory in Argonne, Ill. Potential evapotranspiration is computed from the meteorologic data. The hydrologic data (discharge and stage) are collected at USGS streamflow-gaging stations in DuPage County. These data are stored in a Watershed Data Management (WDM) database. An earlier report describes in detail the WDM database development including the processing of data from January 1, 1997, through September 30, 2004, in SEP04.WDM database. SEP04.WDM is updated with the appended data from October 1, 2004, through September 30, 2011, water years 2005–11 and renamed as SEP11.WDM. This report details the processing of meteorologic and hydrologic data in SEP11.WDM. This report provides a record of snow affected periods and the data used to fill missing-record periods for each precipitation site during water years 2005–11. The meteorologic data filling methods are described in detail in Over and others (2010), and an update is provided in this report.
Planetary Surface Properties, Cratering Physics, and the Volcanic History of Mars from a New Global Martian Crater Database

NASA Astrophysics Data System (ADS)

Robbins, Stuart James

Impact craters are arguably the primary exogenic planetary process contributing to the surface evolution of solid bodies in the solar system. Craters appear across the entire surface of Mars, and they are vital to understanding its crustal properties as well as surface ages and modification events. They allow inferences into the ancient climate and hydrologic history, and they add a key data point for the understanding of impact physics. Previously available databases of Mars impact craters were created from now antiquated datasets, automated algorithms with biases and inaccuracies, were limited in scope, and/or complete only to multikilometer diameters. This work presents a new global database for Mars that contains 378,540 craters statistically complete for diameters D ≳ 1 km. This detailed database includes location and size, ejecta morphology and morphometry, interior morphology and degradation state, and whether the crater is a secondary impact. This database allowed exploration of global crater type distributions, depth, and morphologies in unprecedented detail that were used to re-examine basic crater scaling laws for the planet. The inclusion of hundreds of thousands of small, approximately kilometer-sized impacts facilitated a detailed study of the properties of nearby fields of secondary craters in relation to their primary crater. It also allowed the discovery of vast distant clusters of secondary craters over 5000 km from their primary crater, Lyot. Finally, significantly smaller craters were used to age-date volcanic calderas on the planet to re-construct the timeline of the last primary eruption events from 20 of the major Martian volcanoes.
Customized laboratory information management system for a clinical and research leukemia cytogenetics laboratory.

PubMed

Bakshi, Sonal R; Shukla, Shilin N; Shah, Pankaj M

2009-01-01

We developed a Microsoft Access-based laboratory management system to facilitate database management of leukemia patients referred for cytogenetic tests in regards to karyotyping and fluorescence in situ hybridization (FISH). The database is custom-made for entry of patient data, clinical details, sample details, cytogenetics test results, and data mining for various ongoing research areas. A number of clinical research laboratoryrelated tasks are carried out faster using specific "queries." The tasks include tracking clinical progression of a particular patient for multiple visits, treatment response, morphological and cytogenetics response, survival time, automatic grouping of patient inclusion criteria in a research project, tracking various processing steps of samples, turn-around time, and revenue generated. Since 2005 we have collected of over 5,000 samples. The database is easily updated and is being adapted for various data maintenance and mining needs.
Routine health insurance data for scientific research: potential and limitations of the Agis Health Database.

PubMed

Smeets, Hugo M; de Wit, Niek J; Hoes, Arno W

2011-04-01

Observational studies performed within routine health care databases have the advantage of their large size and, when the aim is to assess the effect of interventions, can offer a completion to randomized controlled trials with usually small samples from experimental situations. Institutional Health Insurance Databases (HIDs) are attractive for research because of their large size, their longitudinal perspective, and their practice-based information. As they are based on financial reimbursement, the information is generally reliable. The database of one of the major insurance companies in the Netherlands, the Agis Health Database (AHD), is described in detail. Whether the AHD data sets meet the specific requirements to conduct several types of clinical studies is discussed according to the classification of the four different types of clinical research; that is, diagnostic, etiologic, prognostic, and intervention research. The potential of the AHD for these various types of research is illustrated using examples of studies recently conducted in the AHD. HIDs such as the AHD offer large potential for several types of clinical research, in particular etiologic and intervention studies, but at present the lack of detailed clinical information is an important limitation. Copyright © 2011 Elsevier Inc. All rights reserved.
Critical heat flux in subcooled flow boiling

NASA Astrophysics Data System (ADS)

Hall, David Douglas

The critical heat flux (CHF) phenomenon was investigated for water flow in tubes with particular emphasis on the development of methods for predicting CHF in the subcooled flow boiling regime. The Purdue University Boiling and Two-Phase Flow Laboratory (PU-BTPFL) CHF database for water flow in a uniformly heated tube was compiled from the world literature dating back to 1949 and represents the largest CHF database ever assembled with 32,544 data points from over 100 sources. The superiority of this database was proven via a detailed examination of previous databases. The PU-BTPFL CHF database is an invaluable tool for the development of CHF correlations and mechanistic models that are superior to existing ones developed with smaller, less comprehensive CHF databases. In response to the many inaccurate and inordinately complex correlations, two nondimensional, subcooled CHF correlations were formulated, containing only five adjustable constants and whose unique functional forms were determined without using a statistical analysis but rather using the parametric trends observed in less than 10% of the subcooled CHF data. The correlation based on inlet conditions (diameter, heated length, mass velocity, pressure, inlet quality) was by far the most accurate of all known subcooled CHF correlations, having mean absolute and root-mean-square (RMS) errors of 10.3% and 14.3%, respectively. The outlet (local) conditions correlation was the most accurate correlation based on local CHF conditions (diameter, mass velocity, pressure, outlet quality) and may be used with a nonuniform axial heat flux. Both correlations proved more accurate than a recent CHF look-up table commonly employed in nuclear reactor thermal hydraulic computer codes. An interfacial lift-off, subcooled CHF model was developed from a consideration of the instability of the vapor-liquid interface and the fraction of heat required for liquid-vapor conversion as opposed to that for bulk liquid heating. Severe vapor effusion in an upstream wetting front lifts the vapor-liquid interface off the surface, triggering CHF. Since the model is entirely based on physical observations, it has the potential to accurately predict CHF for other fluids and flow geometries which are beyond the conditions for which it was validated.
Directory of Assistive Technology: Data Sources.

ERIC Educational Resources Information Center

Council for Exceptional Children, Reston, VA. Center for Special Education Technology.

The annotated directory describes in detail both on-line and print databases in the area of assistive technology for individuals with disabilities. For each database, the directory provides the name, address, and telephone number of the sponsoring organization; disability areas served; number of hardware and software products; types of information…
Trends in Literacy Software Publication and Marketing: Multicultural Themes.

ERIC Educational Resources Information Center

Balajthy, Ernest

This article provides data and discussion of multicultural theme-related issues arising from analysis of a detailed database of commercial software products targeted to reading and literacy education. The database consisted of 1152 titles, representing the offerings of 104 publishers and distributors. Of the titles, 62 were identified as having…
A Digital 3D-Reconstruction of the Younger Dryas Baltic Ice Lake

NASA Astrophysics Data System (ADS)

Jakobsson, M.; Alm, G.; Bjorck, S.; Lindeberg, G.; Svensson, N.

2005-12-01

A digital 3D-reconstruction of the final stage of the ice dammed Baltic Ice Lake (BIL), dated to the very end of the Younger Dryas cold period (ca. 11 600 cal. yr BP) has been compiled using a combined bathymetric-topographic Digital Terrain Model (DTM), Scandinavian ice sheet limits, Baltic Sea Holocene bottom sediment thickness information, and a paleoshoreline database maintained at the Lund University. The combined bathymetric-topographic Digital Terrain Model (DTM) model used to reconstruct the ice dammed lake was compiled specifically for this study from publicly available data sets. The final DTM is in the form of a digital grid on Lamberts Equal Area projection with a resolution of 500 x 500 m, which permits a much more detailed reconstruction of the BIL than previously made. The lake was constructed through a series of experiments where mathematical algorithms were applied to fit the paleolake's surface through the shoreline database. The accumulated Holocene bottom sediments in the Baltic Sea were subsequently subtracted from the present bathymetry in our reconstruction. This allows us to estimate the Baltic Ice Lake's paleobathymetry, area, volume, and hypsometry, which will comprise key input data to lake/climate modeling exercises following this study. The Scandinavian ice sheet margin eventually retreated north of Mount Billingen, which was the high point in terrain of Southern central Sweden bordering to lower terrain further to the North. As a consequence, the BIL was catastrophically drained through this area, resulting in a 25 m drop of the lake level. With our digital BIL model we estimate that approximately 7, 800 km3 of water drained during this event and that the ice dammed lake area was reduced with ca 18 percent. The digital BIL reconstruction is analyzed using 3D-visualization techniques that provide new detailed information on the paleogeography in the area, both before and after the lake drainage, with implications for interpretations of geological records concerning the post-glacial environmental development of southern Scandinavia.
Implementation of medical monitor system based on networks

NASA Astrophysics Data System (ADS)

Yu, Hui; Cao, Yuzhen; Zhang, Lixin; Ding, Mingshi

2006-11-01

In this paper, the development trend of medical monitor system is analyzed and portable trend and network function become more and more popular among all kinds of medical monitor devices. The architecture of medical network monitor system solution is provided and design and implementation details of medical monitor terminal, monitor center software, distributed medical database and two kind of medical information terminal are especially discussed. Rabbit3000 system is used in medical monitor terminal to implement security administration of data transfer on network, human-machine interface, power management and DSP interface while DSP chip TMS5402 is used in signal analysis and data compression. Distributed medical database is designed for hospital center according to DICOM information model and HL7 standard. Pocket medical information terminal based on ARM9 embedded platform is also developed to interactive with center database on networks. Two kernels based on WINCE are customized and corresponding terminal software are developed for nurse's routine care and doctor's auxiliary diagnosis. Now invention patent of the monitor terminal is approved and manufacture and clinic test plans are scheduled. Applications for invention patent are also arranged for two medical information terminals.
Radiative transfer and spectroscopic databases: A line-sampling Monte Carlo approach

NASA Astrophysics Data System (ADS)

Galtier, Mathieu; Blanco, Stéphane; Dauchet, Jérémi; El Hafi, Mouna; Eymet, Vincent; Fournier, Richard; Roger, Maxime; Spiesser, Christophe; Terrée, Guillaume

2016-03-01

Dealing with molecular-state transitions for radiative transfer purposes involves two successive steps that both reach the complexity level at which physicists start thinking about statistical approaches: (1) constructing line-shaped absorption spectra as the result of very numerous state-transitions, (2) integrating over optical-path domains. For the first time, we show here how these steps can be addressed simultaneously using the null-collision concept. This opens the door to the design of Monte Carlo codes directly estimating radiative transfer observables from spectroscopic databases. The intermediate step of producing accurate high-resolution absorption spectra is no longer required. A Monte Carlo algorithm is proposed and applied to six one-dimensional test cases. It allows the computation of spectrally integrated intensities (over 25 cm-1 bands or the full IR range) in a few seconds, regardless of the retained database and line model. But free parameters need to be selected and they impact the convergence. A first possible selection is provided in full detail. We observe that this selection is highly satisfactory for quite distinct atmospheric and combustion configurations, but a more systematic exploration is still in progress.
An approach for access differentiation design in medical distributed applications built on databases.

PubMed

Shoukourian, S K; Vasilyan, A M; Avagyan, A A; Shukurian, A K

1999-01-01

A formalized "top to bottom" design approach was described in [1] for distributed applications built on databases, which were considered as a medium between virtual and real user environments for a specific medical application. Merging different components within a unified distributed application posits new essential problems for software. Particularly protection tools, which are sufficient separately, become deficient during the integration due to specific additional links and relationships not considered formerly. E.g., it is impossible to protect a shared object in the virtual operating room using only DBMS protection tools, if the object is stored as a record in DB tables. The solution of the problem should be found only within the more general application framework. Appropriate tools are absent or unavailable. The present paper suggests a detailed outline of a design and testing toolset for access differentiation systems (ADS) in distributed medical applications which use databases. The appropriate formal model as well as tools for its mapping to a DMBS are suggested. Remote users connected via global networks are considered too.
Selection of climate change scenario data for impact modelling.

PubMed

Sloth Madsen, M; Maule, C Fox; MacKellar, N; Olesen, J E; Christensen, J Hesselbjerg

2012-01-01

Impact models investigating climate change effects on food safety often need detailed climate data. The aim of this study was to select climate change projection data for selected crop phenology and mycotoxin impact models. Using the ENSEMBLES database of climate model output, this study illustrates how the projected climate change signal of important variables as temperature, precipitation and relative humidity depends on the choice of the climate model. Using climate change projections from at least two different climate models is recommended to account for model uncertainty. To make the climate projections suitable for impact analysis at the local scale a weather generator approach was adopted. As the weather generator did not treat all the necessary variables, an ad-hoc statistical method was developed to synthesise realistic values of missing variables. The method is presented in this paper, applied to relative humidity, but it could be adopted to other variables if needed.
A Data Mining Approach to Identify Sexuality Patterns in a Brazilian University Population.

PubMed

Waleska Simões, Priscyla; Cesconetto, Samuel; Toniazzo de Abreu, Larissa Letieli; Côrtes de Mattos Garcia, Merisandra; Cassettari Junior, José Márcio; Comunello, Eros; Bisognin Ceretta, Luciane; Aparecida Manenti, Sandra

2015-01-01

This paper presents the profile and experience of sexuality generated from a data mining classification task. We used a database about sexuality and gender violence performed on a university population in southern Brazil. The data mining task identified two relationships between the variables, which enabled the distinction of subgroups that better detail the profile and experience of sexuality. The identification of the relationships between the variables define behavioral models and factors of risk that will help define the algorithms being implemented in the data mining classification task.
Assessment of CFD-based Response Surface Model for Ares I Supersonic Ascent Aerodynamics

NASA Technical Reports Server (NTRS)

Hanke, Jeremy L.

2011-01-01

The Ascent Force and Moment Aerodynamic (AFMA) Databases (DBs) for the Ares I Crew Launch Vehicle (CLV) were typically based on wind tunnel (WT) data, with increments provided by computational fluid dynamics (CFD) simulations for aspects of the vehicle that could not be tested in the WT tests. During the Design Analysis Cycle 3 analysis for the outer mold line (OML) geometry designated A106, a major tunnel mishap delayed the WT test for supersonic Mach numbers (M) greater than 1.6 in the Unitary Plan Wind Tunnel at NASA Langley Research Center, and the test delay pushed the final delivery of the A106 AFMA DB back by several months. The aero team developed an interim database based entirely on the already completed CFD simulations to mitigate the impact of the delay. This CFD-based database used a response surface methodology based on radial basis functions to predict the aerodynamic coefficients for M > 1.6 based on only the CFD data from both WT and flight Reynolds number conditions. The aero team used extensive knowledge of the previous AFMA DB for the A103 OML to guide the development of the CFD-based A106 AFMA DB. This report details the development of the CFD-based A106 Supersonic AFMA DB, constructs a prediction of the database uncertainty using data available at the time of development, and assesses the overall quality of the CFD-based DB both qualitatively and quantitatively. This assessment confirms that a reasonable aerodynamic database can be constructed for launch vehicles at supersonic conditions using only CFD data if sufficient knowledge of the physics and expected behavior is available. This report also demonstrates the applicability of non-parametric response surface modeling using radial basis functions for development of aerodynamic databases that exhibit both linear and non-linear behavior throughout a large data space.
Robust PBPK/PD-Based Model Predictive Control of Blood Glucose.

PubMed

Schaller, Stephan; Lippert, Jorg; Schaupp, Lukas; Pieber, Thomas R; Schuppert, Andreas; Eissing, Thomas

2016-07-01

Automated glucose control (AGC) has not yet reached the point where it can be applied clinically [3]. Challenges are accuracy of subcutaneous (SC) glucose sensors, physiological lag times, and both inter- and intraindividual variability. To address above issues, we developed a novel scheme for MPC that can be applied to AGC. An individualizable generic whole-body physiology-based pharmacokinetic and dynamics (PBPK/PD) model of the glucose, insulin, and glucagon metabolism has been used as the predictive kernel. The high level of mechanistic detail represented by the model takes full advantage of the potential of MPC and may make long-term prediction possible as it captures at least some relevant sources of variability [4]. Robustness against uncertainties was increased by a control cascade relying on proportional-integrative derivative-based offset control. The performance of this AGC scheme was evaluated in silico and retrospectively using data from clinical trials. This analysis revealed that our approach handles sensor noise with a MARD of 10%-14%, and model uncertainties and disturbances. The results suggest that PBPK/PD models are well suited for MPC in a glucose control setting, and that their predictive power in combination with the integrated database-driven (a priori individualizable) model framework will help overcome current challenges in the development of AGC systems. This study provides a new, generic, and robust mechanistic approach to AGC using a PBPK platform with extensive a priori (database) knowledge for individualization.
Practice databases and their uses in clinical research.

PubMed

Tierney, W M; McDonald, C J

1991-04-01

A few large clinical information databases have been established within larger medical information systems. Although they are smaller than claims databases, these clinical databases offer several advantages: accurate and timely data, rich clinical detail, and continuous parameters (for example, vital signs and laboratory results). However, the nature of the data vary considerably, which affects the kinds of secondary analyses that can be performed. These databases have been used to investigate clinical epidemiology, risk assessment, post-marketing surveillance of drugs, practice variation, resource use, quality assurance, and decision analysis. In addition, practice databases can be used to identify subjects for prospective studies. Further methodologic developments are necessary to deal with the prevalent problems of missing data and various forms of bias if such databases are to grow and contribute valuable clinical information.
Database on veterinary clinical research in homeopathy.

PubMed

Clausen, Jürgen; Albrecht, Henning

2010-07-01

The aim of the present report is to provide an overview of the first database on clinical research in veterinary homeopathy. Detailed searches in the database 'Veterinary Clinical Research-Database in Homeopathy' (http://www.carstens-stiftung.de/clinresvet/index.php). The database contains about 200 entries of randomised clinical trials, non-randomised clinical trials, observational studies, drug provings, case reports and case series. Twenty-two clinical fields are covered and eight different groups of species are included. The database is free of charge and open to all interested veterinarians and researchers. The database enables researchers and veterinarians, sceptics and supporters to get a quick overview of the status of veterinary clinical research in homeopathy and alleviates the preparation of systematical reviews or may stimulate reproductions or even new studies. 2010 Elsevier Ltd. All rights reserved.

Allosteric regulation of phosphofructokinase controls the emergence of glycolytic oscillations in isolated yeast cells.

PubMed

Gustavsson, Anna-Karin; van Niekerk, David D; Adiels, Caroline B; Kooi, Bob; Goksör, Mattias; Snoep, Jacky L

2014-06-01

Oscillations are widely distributed in nature and synchronization of oscillators has been described at the cellular level (e.g. heart cells) and at the population level (e.g. fireflies). Yeast glycolysis is the best known oscillatory system, although it has been studied almost exclusively at the population level (i.e. limited to observations of average behaviour in synchronized cultures). We studied individual yeast cells that were positioned with optical tweezers in a microfluidic chamber to determine the precise conditions for autonomous glycolytic oscillations. Hopf bifurcation points were determined experimentally in individual cells as a function of glucose and cyanide concentrations. The experiments were analyzed in a detailed mathematical model and could be interpreted in terms of an oscillatory manifold in a three-dimensional state-space; crossing the boundaries of the manifold coincides with the onset of oscillations and positioning along the longitudinal axis of the volume sets the period. The oscillatory manifold could be approximated by allosteric control values of phosphofructokinase for ATP and AMP. The mathematical models described here have been submitted to the JWS Online Cellular Systems Modelling Database and can be accessed at http://jjj.mib.ac.uk/webMathematica/UItester.jsp?modelName=gustavsson5. [Database section added 14 May 2014 after original online publication]. © 2014 FEBS.
Experimental and Numerical Investigation of Reduced Gravity Fluid Slosh Dynamics for the Characterization of Cryogenic Launch and Space Vehicle Propellants

NASA Technical Reports Server (NTRS)

Walls, Laurie K.; Kirk, Daniel; deLuis, Kavier; Haberbusch, Mark S.

2011-01-01

As space programs increasingly investigate various options for long duration space missions the accurate prediction of propellant behavior over long periods of time in microgravity environment has become increasingly imperative. This has driven the development of a detailed, physics-based understanding of slosh behavior of cryogenic propellants over a range of conditions and environments that are relevant for rocket and space storage applications. Recent advancements in computational fluid dynamics (CFD) models and hardware capabilities have enabled the modeling of complex fluid behavior in microgravity environment. Historically, launch vehicles with moderate duration upper stage coast periods have contained very limited instrumentation to quantify propellant stratification and boil-off in these environments, thus the ability to benchmark these complex computational models is of great consequence. To benchmark enhanced CFD models, recent work focuses on establishing an extensive experimental database of liquid slosh under a wide range of relevant conditions. In addition, a mass gauging system specifically designed to provide high fidelity measurements for both liquid stratification and liquid/ullage position in a micro-gravity environment has been developed. This pUblication will summarize the various experimental programs established to produce this comprehensive database and unique flight measurement techniques.
Wind tunnel measurements for dispersion modelling of vehicle wakes

NASA Astrophysics Data System (ADS)

Carpentieri, Matteo; Kumar, Prashant; Robins, Alan

2012-12-01

Wind tunnel measurements downwind of reduced scale car models have been made to study the wake regions in detail, test the usefulness of existing vehicle wake models, and draw key information needed for dispersion modelling in vehicle wakes. The experiments simulated a car moving in still air. This is achieved by (i) the experimental characterisation of the flow, turbulence and concentration fields in both the near and far wake regions, (ii) the preliminary assessment of existing wake models using the experimental database, and (iii) the comparison of previous field measurements in the wake of a real diesel car with the wind tunnel measurements. The experiments highlighted very large gradients of velocities and concentrations existing, in particular, in the near-wake. Of course, the measured fields are strongly dependent on the geometry of the modelled vehicle and a generalisation for other vehicles may prove to be difficult. The methodology applied in the present study, although improvable, could constitute a first step towards the development of mathematical parameterisations. Experimental results were also compared with the estimates from two wake models. It was found that they can adequately describe the far-wake of a vehicle in terms of velocities, but a better characterisation in terms of turbulence and pollutant dispersion is needed. Parameterised models able to predict velocity and concentrations with fine enough details at the near-wake scale do not exist.
A Naive Bayes machine learning approach to risk prediction using censored, time-to-event data.

PubMed

Wolfson, Julian; Bandyopadhyay, Sunayan; Elidrisi, Mohamed; Vazquez-Benitez, Gabriela; Vock, David M; Musgrove, Donald; Adomavicius, Gediminas; Johnson, Paul E; O'Connor, Patrick J

2015-09-20

Predicting an individual's risk of experiencing a future clinical outcome is a statistical task with important consequences for both practicing clinicians and public health experts. Modern observational databases such as electronic health records provide an alternative to the longitudinal cohort studies traditionally used to construct risk models, bringing with them both opportunities and challenges. Large sample sizes and detailed covariate histories enable the use of sophisticated machine learning techniques to uncover complex associations and interactions, but observational databases are often 'messy', with high levels of missing data and incomplete patient follow-up. In this paper, we propose an adaptation of the well-known Naive Bayes machine learning approach to time-to-event outcomes subject to censoring. We compare the predictive performance of our method with the Cox proportional hazards model which is commonly used for risk prediction in healthcare populations, and illustrate its application to prediction of cardiovascular risk using an electronic health record dataset from a large Midwest integrated healthcare system. Copyright © 2015 John Wiley & Sons, Ltd.
Disease model curation improvements at Mouse Genome Informatics

PubMed Central

Bello, Susan M.; Richardson, Joel E.; Davis, Allan P.; Wiegers, Thomas C.; Mattingly, Carolyn J.; Dolan, Mary E.; Smith, Cynthia L.; Blake, Judith A.; Eppig, Janan T.

2012-01-01

Optimal curation of human diseases requires an ontology or structured vocabulary that contains terms familiar to end users, is robust enough to support multiple levels of annotation granularity, is limited to disease terms and is stable enough to avoid extensive reannotation following updates. At Mouse Genome Informatics (MGI), we currently use disease terms from Online Mendelian Inheritance in Man (OMIM) to curate mouse models of human disease. While OMIM provides highly detailed disease records that are familiar to many in the medical community, it lacks structure to support multilevel annotation. To improve disease annotation at MGI, we evaluated the merged Medical Subject Headings (MeSH) and OMIM disease vocabulary created by the Comparative Toxicogenomics Database (CTD) project. Overlaying MeSH onto OMIM provides hierarchical access to broad disease terms, a feature missing from the OMIM. We created an extended version of the vocabulary to meet the genetic disease-specific curation needs at MGI. Here we describe our evaluation of the CTD application, the extensions made by MGI and discuss the strengths and weaknesses of this approach. Database URL: http://www.informatics.jax.org/ PMID:22434831
Flight Deck Interval Management Display. [Elements, Information and Annunciations Database User Guide

NASA Technical Reports Server (NTRS)

Lancaster, Jeff; Dillard, Michael; Alves, Erin; Olofinboba, Olu

2014-01-01

The User Guide details the Access Database provided with the Flight Deck Interval Management (FIM) Display Elements, Information, & Annunciations program. The goal of this User Guide is to support ease of use and the ability to quickly retrieve and select items of interest from the Database. The Database includes FIM Concepts identified in a literature review preceding the publication of this document. Only items that are directly related to FIM (e.g., spacing indicators), which change or enable FIM (e.g., menu with control buttons), or which are affected by FIM (e.g., altitude reading) are included in the database. The guide has been expanded from previous versions to cover database structure, content, and search features with voiced explanations.
Meta-All: a system for managing metabolic pathway information.

PubMed

Weise, Stephan; Grosse, Ivo; Klukas, Christian; Koschützki, Dirk; Scholz, Uwe; Schreiber, Falk; Junker, Björn H

2006-10-23

Many attempts are being made to understand biological subjects at a systems level. A major resource for these approaches are biological databases, storing manifold information about DNA, RNA and protein sequences including their functional and structural motifs, molecular markers, mRNA expression levels, metabolite concentrations, protein-protein interactions, phenotypic traits or taxonomic relationships. The use of these databases is often hampered by the fact that they are designed for special application areas and thus lack universality. Databases on metabolic pathways, which provide an increasingly important foundation for many analyses of biochemical processes at a systems level, are no exception from the rule. Data stored in central databases such as KEGG, BRENDA or SABIO-RK is often limited to read-only access. If experimentalists want to store their own data, possibly still under investigation, there are two possibilities. They can either develop their own information system for managing that own data, which is very time-consuming and costly, or they can try to store their data in existing systems, which is often restricted. Hence, an out-of-the-box information system for managing metabolic pathway data is needed. We have designed META-ALL, an information system that allows the management of metabolic pathways, including reaction kinetics, detailed locations, environmental factors and taxonomic information. Data can be stored together with quality tags and in different parallel versions. META-ALL uses Oracle DBMS and Oracle Application Express. We provide the META-ALL information system for download and use. In this paper, we describe the database structure and give information about the tools for submitting and accessing the data. As a first application of META-ALL, we show how the information contained in a detailed kinetic model can be stored and accessed. META-ALL is a system for managing information about metabolic pathways. It facilitates the handling of pathway-related data and is designed to help biochemists and molecular biologists in their daily research. It is available on the Web at http://bic-gh.de/meta-all and can be downloaded free of charge and installed locally.
Meta-All: a system for managing metabolic pathway information

PubMed Central

Weise, Stephan; Grosse, Ivo; Klukas, Christian; Koschützki, Dirk; Scholz, Uwe; Schreiber, Falk; Junker, Björn H

2006-01-01

Background Many attempts are being made to understand biological subjects at a systems level. A major resource for these approaches are biological databases, storing manifold information about DNA, RNA and protein sequences including their functional and structural motifs, molecular markers, mRNA expression levels, metabolite concentrations, protein-protein interactions, phenotypic traits or taxonomic relationships. The use of these databases is often hampered by the fact that they are designed for special application areas and thus lack universality. Databases on metabolic pathways, which provide an increasingly important foundation for many analyses of biochemical processes at a systems level, are no exception from the rule. Data stored in central databases such as KEGG, BRENDA or SABIO-RK is often limited to read-only access. If experimentalists want to store their own data, possibly still under investigation, there are two possibilities. They can either develop their own information system for managing that own data, which is very time-consuming and costly, or they can try to store their data in existing systems, which is often restricted. Hence, an out-of-the-box information system for managing metabolic pathway data is needed. Results We have designed META-ALL, an information system that allows the management of metabolic pathways, including reaction kinetics, detailed locations, environmental factors and taxonomic information. Data can be stored together with quality tags and in different parallel versions. META-ALL uses Oracle DBMS and Oracle Application Express. We provide the META-ALL information system for download and use. In this paper, we describe the database structure and give information about the tools for submitting and accessing the data. As a first application of META-ALL, we show how the information contained in a detailed kinetic model can be stored and accessed. Conclusion META-ALL is a system for managing information about metabolic pathways. It facilitates the handling of pathway-related data and is designed to help biochemists and molecular biologists in their daily research. It is available on the Web at and can be downloaded free of charge and installed locally. PMID:17059592
Graph theoretical model of a sensorimotor connectome in zebrafish.

PubMed

Stobb, Michael; Peterson, Joshua M; Mazzag, Borbala; Gahtan, Ethan

2012-01-01

Mapping the detailed connectivity patterns (connectomes) of neural circuits is a central goal of neuroscience. The best quantitative approach to analyzing connectome data is still unclear but graph theory has been used with success. We present a graph theoretical model of the posterior lateral line sensorimotor pathway in zebrafish. The model includes 2,616 neurons and 167,114 synaptic connections. Model neurons represent known cell types in zebrafish larvae, and connections were set stochastically following rules based on biological literature. Thus, our model is a uniquely detailed computational representation of a vertebrate connectome. The connectome has low overall connection density, with 2.45% of all possible connections, a value within the physiological range. We used graph theoretical tools to compare the zebrafish connectome graph to small-world, random and structured random graphs of the same size. For each type of graph, 100 randomly generated instantiations were considered. Degree distribution (the number of connections per neuron) varied more in the zebrafish graph than in same size graphs with less biological detail. There was high local clustering and a short average path length between nodes, implying a small-world structure similar to other neural connectomes and complex networks. The graph was found not to be scale-free, in agreement with some other neural connectomes. An experimental lesion was performed that targeted three model brain neurons, including the Mauthner neuron, known to control fast escape turns. The lesion decreased the number of short paths between sensory and motor neurons analogous to the behavioral effects of the same lesion in zebrafish. This model is expandable and can be used to organize and interpret a growing database of information on the zebrafish connectome.
Estimation of 1945 to 1957 food consumption. Hanford Environmental Dose Reconstruction Project: Draft

DOE Office of Scientific and Technical Information (OSTI.GOV)

Anderson, D.M.; Bates, D.J.; Marsh, T.L.

This report details the methods used and the results of the study on the estimated historic levels of food consumption by individuals in the Hanford Environmental Dose Reconstruction (HEDR) study area from 1945--1957. This period includes the time of highest releases from Hanford and is the period for which data are being collected in the Hanford Thyroid Disease Study. These estimates provide the food-consumption inputs for the HEDR database of individual diets. This database will be an input file in the Hanford Environmental Dose Reconstruction Integrated Code (HEDRIC) computer model that will be used to calculate the radiation dose. Themore » report focuses on fresh milk, eggs, lettuce, and spinach. These foods were chosen because they have been found to be significant contributors to radiation dose based on the Technical Steering Panel dose decision level.« less
Estimation of 1945 to 1957 food consumption. Hanford Environmental Dose Reconstruction Project

DOE Office of Scientific and Technical Information (OSTI.GOV)

Anderson, D.M.; Bates, D.J.; Marsh, T.L.

This report details the methods used and the results of the study on the estimated historic levels of food consumption by individuals in the Hanford Environmental Dose Reconstruction (HEDR) study area from 1945--1957. This period includes the time of highest releases from Hanford and is the period for which data are being collected in the Hanford Thyroid Disease Study. These estimates provide the food-consumption inputs for the HEDR database of individual diets. This database will be an input file in the Hanford Environmental Dose Reconstruction Integrated Code (HEDRIC) computer model that will be used to calculate the radiation dose. Themore » report focuses on fresh milk, eggs, lettuce, and spinach. These foods were chosen because they have been found to be significant contributors to radiation dose based on the Technical Steering Panel dose decision level.« less
High-throughput mouse genotyping using robotics automation.

PubMed

Linask, Kaari L; Lo, Cecilia W

2005-02-01

The use of mouse models is rapidly expanding in biomedical research. This has dictated the need for the rapid genotyping of mutant mouse colonies for more efficient utilization of animal holding space. We have established a high-throughput protocol for mouse genotyping using two robotics workstations: a liquid-handling robot to assemble PCR and a microfluidics electrophoresis robot for PCR product analysis. This dual-robotics setup incurs lower start-up costs than a fully automated system while still minimizing human intervention. Essential to this automation scheme is the construction of a database containing customized scripts for programming the robotics workstations. Using these scripts and the robotics systems, multiple combinations of genotyping reactions can be assembled simultaneously, allowing even complex genotyping data to be generated rapidly with consistency and accuracy. A detailed protocol, database, scripts, and additional background information are available at http://dir.nhlbi.nih.gov/labs/ldb-chd/autogene/.
An analysis of the lithology to resistivity relationships using airborne EM and boreholes

NASA Astrophysics Data System (ADS)

Barfod, Adrian A. S.; Christiansen, Anders V.; Møller, Ingelise

2014-05-01

We present a study of the relationship between dense airborne SkyTEM resistivity data and sparse lithological borehole data. Understanding the geological structures of the subsurface is of great importance to hydrogeological surveys. Large scale geological information can be gathered directly from boreholes or indirectly from large geophysical surveys. Borehole data provides detailed lithological information only at the position of the borehole and, due to the sparse nature of boreholes, they rarely provide sufficient information needed for high-accuracy groundwater models. Airborne geophysical data, on the other hand, provide dense spatial coverage, but are only indirectly bearing information on lithology through the resistivity models. Hitherherto, the integration of the geophysical data into geological and hydrogeological models has been often subjective, largely un-documented and painstakingly manual. This project presents a detailed study of the relationships between resistivity data and lithological borehole data. The purpose is to objectively describe the relationships between lithology and geophysical parameters and to document these relationships. This project has focused on utilizing preexisting datasets from the Danish national borehole database (JUPITER) and national geophysical database (GERDA). The study presented here is from the Norsminde catchment area (208 sq. km), situated in the municipality of Odder, Denmark. The Norsminde area contains a total of 758 boreholes and 106,770 SkyTEM soundings. The large amounts of data make the Norsminde area ideal for studying the relationship between geophysical data and lithological data. The subsurface is discretized into 20 cm horizontal sampling intervals from the highest elevation point to the depth of the deepest borehole. For each of these intervals a resistivity value is calculated at the position of the boreholes using a kriging formulation. The lithology data from the boreholes are then used to categorize the interpolated resistivity values according to lithology. The end result of this comparison is resistivity distributions for different lithology categories. The distributions provide detailed objective information of the resistivity properties of the subsurface and are a documentation of the resistivity imaging of the geological lithologies. We show that different lithologies are mapped at distinctively different resistivities but also that the geophysical inversion strategies influences the resulting distributions significantly.
Application GIS on university planning: building a spatial database aided spatial decision

NASA Astrophysics Data System (ADS)

Miao, Lei; Wu, Xiaofang; Wang, Kun; Nong, Yu

2007-06-01

With the development of university and its size enlarging, kinds of resource need to effective management urgently. Spacial database is the right tool to assist administrator's spatial decision. And it's ready for digital campus with integrating existing OMS. It's researched about the campus planning in detail firstly. Following instanced by south china agriculture university it is practiced that how to build the geographic database of the campus building and house for university administrator's spatial decision.
Applying the vantage PDMS to jack-up drilling ships

NASA Astrophysics Data System (ADS)

Yin, Peng; Chen, Yuan-Ming; Cui, Tong-Kai; Wang, Zi-Shen; Gong, Li-Jiang; Yu, Xiang-Fen

2009-09-01

The plant design management system (PDMS) is an integrated application which includes a database and is useful when designing complex 3-D industrial projects. It could be used to simplify the most difficult part of a subsea oil extraction project—detailed pipeline design. It could also be used to integrate the design of equipment, structures, HVAC, E-ways as well as the detailed designs of other specialists. This article mainly examines the applicability of the Vantage PDMS database to pipeline projects involving jack-up drilling ships. It discusses the catalogue (CATA) of the pipeline, the spec-world (SPWL) of the pipeline, the bolt tables (BLTA) and so on. This article explains the main methods for CATA construction as well as problem in the process of construction. In this article, the authors point out matters needing attention when using the Vantage PDMS database in the design process and discuss partial solutions to these questions.
Database for landscape-scale carbon monitoring sites

Treesearch

Jason A. Cole; Kristopher D. Johnson; Richard A. Birdsey; Yude Pan; Craig A. Wayson; Kevin McCullough; Coeli M. Hoover; David Y. Hollinger; John B. Bradford; Michael G. Ryan; Randall K. Kolka; Peter Wieshampel; Kenneth L. Clark; Nicholas S. Skowronski; John Hom; Scott V. Ollinger; Steven G. McNulty; Michael J. Gavazzi

2013-01-01

This report describes the database used to compile, store, and manage intensive ground-based biometric data collected at research sites in Colorado, Minnesota, New Hampshire, New Jersey, North Carolina, and Wyoming, supporting research activities of the U.S. North American Carbon Program (NACP). This report also provides details of each site, the sampling design and...
Database Initiative Project: Supporting Education Decision Making.

ERIC Educational Resources Information Center

Oregon State Dept. of Education, Salem.

This paper reports on Oregon's Database Initiative Project (DIP). In response to inconsistent financial reports and a lack of automation, a project team was assembled by Oregon's Department of Education in 1997 with the goal of providing detailed school-level data for the 1997-98 school year in 16 Oregonian school districts. Among the project's…
Assessment of radionuclide databases in CAP88 mainframe version 1.0 and Windows-based version 3.0.

PubMed

LaBone, Elizabeth D; Farfán, Eduardo B; Lee, Patricia L; Jannik, G Timothy; Donnelly, Elizabeth H; Foley, Trevor Q

2009-09-01

In this study the radionuclide databases for two versions of the Clean Air Act Assessment Package-1988 (CAP88) computer model were assessed in detail. CAP88 estimates radiation dose and the risk of health effects to human populations from radionuclide emissions to air. This program is used by several U.S. Department of Energy (DOE) facilities to comply with National Emission Standards for Hazardous Air Pollutants regulations. CAP88 Mainframe, referred to as version 1.0 on the U.S. Environmental Protection Agency Web site (http://www.epa.gov/radiation/assessment/CAP88/), was the very first CAP88 version released in 1988. Some DOE facilities including the Savannah River Site still employ this version (1.0) while others use the more user-friendly personal computer Windows-based version 3.0 released in December 2007. Version 1.0 uses the program RADRISK based on International Commission on Radiological Protection Publication 30 as its radionuclide database. Version 3.0 uses half-life, dose, and risk factor values based on Federal Guidance Report 13. Differences in these values could cause different results for the same input exposure data (same scenario), depending on which version of CAP88 is used. Consequently, the differences between the two versions are being assessed in detail at Savannah River National Laboratory. The version 1.0 and 3.0 database files contain 496 and 838 radionuclides, respectively, and though one would expect the newer version to include all the 496 radionuclides, 35 radionuclides are listed in version 1.0 that are not included in version 3.0. The majority of these has either extremely short or long half-lives or is no longer in production; however, some of the short-lived radionuclides might produce progeny of great interest at DOE sites. In addition, 122 radionuclides were found to have different half-lives in the two versions, with 21 over 3 percent different and 12 over 10 percent different.
The Golosiiv on-line plate archive database, management and maintenance

NASA Astrophysics Data System (ADS)

Pakuliak, L.; Sergeeva, T.

2007-08-01

We intend to create online version of the database of the MAO NASU plate archive as VO-compatible structures in accordance with principles, developed by the International Virtual Observatory Alliance in order to make them available for world astronomical community. The online version of the log-book database is constructed by means of MySQL+PHP. Data management system provides a user with user interface, gives a capability of detailed traditional form-filling radial search of plates, obtaining some auxiliary sampling, the listing of each collection and permits to browse the detail descriptions of collections. The administrative tool allows database administrator the data correction, enhancement with new data sets and control of the integrity and consistence of the database as a whole. The VO-compatible database is currently constructing under the demands and in the accordance with principles of international data archives and has to be strongly generalized in order to provide a possibility of data mining by means of standard interfaces and to be the best fitted to the demands of WFPDB Group for databases of the plate catalogues. On-going enhancements of database toward the WFPDB bring the problem of the verification of data to the forefront, as it demands the high degree of data reliability. The process of data verification is practically endless and inseparable from data management owing to a diversity of data errors nature, that means to a variety of ploys of their identification and fixing. The current status of MAO NASU glass archive forces the activity in both directions simultaneously: the enhancement of log-book database with new sets of observational data as well as generalized database creation and the cross-identification between them. The VO-compatible version of the database is supplying with digitized data of plates obtained with MicroTek ScanMaker 9800 XL TMA. The scanning procedure is not total but is conducted selectively in the frames of special projects.
A spatial database for landslides in northern Bavaria: A methodological approach

NASA Astrophysics Data System (ADS)

Jäger, Daniel; Kreuzer, Thomas; Wilde, Martina; Bemm, Stefan; Terhorst, Birgit

2018-04-01

Landslide databases provide essential information for hazard modeling, damages on buildings and infrastructure, mitigation, and research needs. This study presents the development of a landslide database system named WISL (Würzburg Information System on Landslides), currently storing detailed landslide data for northern Bavaria, Germany, in order to enable scientific queries as well as comparisons with other regional landslide inventories. WISL is based on free open source software solutions (PostgreSQL, PostGIS) assuring good correspondence of the various softwares and to enable further extensions with specific adaptions of self-developed software. Apart from that, WISL was designed to be particularly compatible for easy communication with other databases. As a central pre-requisite for standardized, homogeneous data acquisition in the field, a customized data sheet for landslide description was compiled. This sheet also serves as an input mask for all data registration procedures in WISL. A variety of "in-database" solutions for landslide analysis provides the necessary scalability for the database, enabling operations at the local server. In its current state, WISL already enables extensive analysis and queries. This paper presents an example analysis of landslides in Oxfordian Limestones in the northeastern Franconian Alb, northern Bavaria. The results reveal widely differing landslides in terms of geometry and size. Further queries related to landslide activity classifies the majority of the landslides as currently inactive, however, they clearly possess a certain potential for remobilization. Along with some active mass movements, a significant percentage of landslides potentially endangers residential areas or infrastructure. The main aspect of future enhancements of the WISL database is related to data extensions in order to increase research possibilities, as well as to transfer the system to other regions and countries.

Environmental Database For Water-Quality Data for the Penobscot River, Maine: Design Documentation and User Guide

USGS Publications Warehouse

Giffen, Sarah E.

2002-01-01

An environmental database was developed to store water-quality data collected during the 1999 U.S. Geological Survey investigation of the occurrence and distribution of dioxins, furans, and PCBs in the riverbed sediment and fish tissue in the Penobscot River in Maine. The database can be used to store a wide range of detailed information and to perform complex queries on the data it contains. The database also could be used to store data from other historical and any future environmental studies conducted on the Penobscot River and surrounding regions.
Database security and encryption technology research and application

NASA Astrophysics Data System (ADS)

Zhu, Li-juan

2013-03-01

The main purpose of this paper is to discuss the current database information leakage problem, and discuss the important role played by the message encryption techniques in database security, As well as MD5 encryption technology principle and the use in the field of website or application. This article is divided into introduction, the overview of the MD5 encryption technology, the use of MD5 encryption technology and the final summary. In the field of requirements and application, this paper makes readers more detailed and clearly understood the principle, the importance in database security, and the use of MD5 encryption technology.
The implementation of non-Voigt line profiles in the HITRAN database: H2 case study

NASA Astrophysics Data System (ADS)

Wcisło, P.; Gordon, I. E.; Tran, H.; Tan, Y.; Hu, S.-M.; Campargue, A.; Kassi, S.; Romanini, D.; Hill, C.; Kochanov, R. V.; Rothman, L. S.

2016-07-01

Experimental capabilities of molecular spectroscopy and its applications nowadays require a sub-percent or even sub-per mille accuracy of the representation of the shapes of molecular transitions. This implies the necessity of using more advanced line-shape models which are characterized by many more parameters than a simple Voigt profile. It is a great challenge for modern molecular spectral databases to store and maintain the extended set of line-shape parameters as well as their temperature dependences. It is even more challenging to reliably retrieve these parameters from experimental spectra over a large range of pressures and temperatures. In this paper we address this problem starting from the case of the H2 molecule for which the non-Voigt line-shape effects are exceptionally pronounced. For this purpose we reanalyzed the experimental data reported in the literature. In particular, we performed detailed line-shape analysis of high-quality spectra obtained with cavity-enhanced techniques. We also report the first high-quality cavity-enhanced measurement of the H2 fundamental vibrational mode. We develop a correction to the Hartmann-Tran profile (HTP) which adjusts the HTP to the particular model of the velocity-changing collisions. This allows the measured spectra to be better represented over a wide range of pressures. The problem of storing the HTP parameters in the HITRAN database together with their temperature dependences is also discussed.
TNAURice: Database on rice varieties released from Tamil Nadu Agricultural University

PubMed Central

Ramalingam, Jegadeesan; Arul, Loganathan; Sathishkumar, Natarajan; Vignesh, Dhandapani; Thiyagarajan, Katiannan; Samiyappan, Ramasamy

2010-01-01

We developed, TNAURice: a database comprising of the rice varieties released from a public institution, Tamil Nadu Agricultural University (TNAU), Coimbatore, India. Backed by MS-SQL, and ASP-Net at the front end, this database provide information on both quantitative and qualitative descriptors of the rice varities inclusive of their parental details. Enabled by an user friendly search utility, the database can be effectively searched by the varietal descriptors, and the entire contents are navigable as well. The database comes handy to the plant breeders involved in the varietal improvement programs to decide on the choice of parental lines. TNAURice is available for public access at http://www.btistnau.org/germdefault.aspx. PMID:21364829
TNAURice: Database on rice varieties released from Tamil Nadu Agricultural University.

PubMed

Ramalingam, Jegadeesan; Arul, Loganathan; Sathishkumar, Natarajan; Vignesh, Dhandapani; Thiyagarajan, Katiannan; Samiyappan, Ramasamy

2010-11-27

WE DEVELOPED, TNAURICE: a database comprising of the rice varieties released from a public institution, Tamil Nadu Agricultural University (TNAU), Coimbatore, India. Backed by MS-SQL, and ASP-Net at the front end, this database provide information on both quantitative and qualitative descriptors of the rice varities inclusive of their parental details. Enabled by an user friendly search utility, the database can be effectively searched by the varietal descriptors, and the entire contents are navigable as well. The database comes handy to the plant breeders involved in the varietal improvement programs to decide on the choice of parental lines. TNAURice is available for public access at http://www.btistnau.org/germdefault.aspx.
[Design and establishment of modern literature database about acupuncture Deqi].

PubMed

Guo, Zheng-rong; Qian, Gui-feng; Pan, Qiu-yin; Wang, Yang; Xin, Si-yuan; Li, Jing; Hao, Jie; Hu, Ni-juan; Zhu, Jiang; Ma, Liang-xiao

2015-02-01

A search on acupuncture Deqi was conducted using four Chinese-language biomedical databases (CNKI, Wan-Fang, VIP and CBM) and PubMed database and using keywords "Deqi" or "needle sensation" "needling feeling" "needle feel" "obtaining qi", etc. Then, a "Modern Literature Database for Acupuncture Deqi" was established by employing Microsoft SQL Server 2005 Express Edition, introducing the contents, data types, information structure and logic constraint of the system table fields. From this Database, detailed inquiries about general information of clinical trials, acupuncturists' experience, ancient medical works, comprehensive literature, etc. can be obtained. The present databank lays a foundation for subsequent evaluation of literature quality about Deqi and data mining of undetected Deqi knowledge.
EST databases and web tools for EST projects.

PubMed

Shen, Yao-Qing; O'Brien, Emmet; Koski, Liisa; Lang, B Franz; Burger, Gertraud

2009-01-01

This chapter outlines key considerations for constructing and implementing an EST database. Instead of showing the technological details step by step, emphasis is put on the design of an EST database suited to the specific needs of EST projects and how to choose the most suitable tools. Using TBestDB as an example, we illustrate the essential factors to be considered for database construction and the steps for data population and annotation. This process employs technologies such as PostgreSQL, Perl, and PHP to build the database and interface, and tools such as AutoFACT for data processing and annotation. We discuss these in comparison to other available technologies and tools, and explain the reasons for our choices.
The AMMA database

NASA Astrophysics Data System (ADS)

Boichard, Jean-Luc; Brissebrat, Guillaume; Cloche, Sophie; Eymard, Laurence; Fleury, Laurence; Mastrorillo, Laurence; Moulaye, Oumarou; Ramage, Karim

2010-05-01

The AMMA project includes aircraft, ground-based and ocean measurements, an intensive use of satellite data and diverse modelling studies. Therefore, the AMMA database aims at storing a great amount and a large variety of data, and at providing the data as rapidly and safely as possible to the AMMA research community. In order to stimulate the exchange of information and collaboration between researchers from different disciplines or using different tools, the database provides a detailed description of the products and uses standardized formats. The AMMA database contains: - AMMA field campaigns datasets; - historical data in West Africa from 1850 (operational networks and previous scientific programs); - satellite products from past and future satellites, (re-)mapped on a regular latitude/longitude grid and stored in NetCDF format (CF Convention); - model outputs from atmosphere or ocean operational (re-)analysis and forecasts, and from research simulations. The outputs are processed as the satellite products are. Before accessing the data, any user has to sign the AMMA data and publication policy. This chart only covers the use of data in the framework of scientific objectives and categorically excludes the redistribution of data to third parties and the usage for commercial applications. Some collaboration between data producers and users, and the mention of the AMMA project in any publication is also required. The AMMA database and the associated on-line tools have been fully developed and are managed by two teams in France (IPSL Database Centre, Paris and OMP, Toulouse). Users can access data of both data centres using an unique web portal. This website is composed of different modules : - Registration: forms to register, read and sign the data use chart when an user visits for the first time - Data access interface: friendly tool allowing to build a data extraction request by selecting various criteria like location, time, parameters... The request can concern local, satellite and model data. - Documentation: catalogue of all the available data and their metadata. These tools have been developed using standard and free languages and softwares: - Linux system with an Apache web server and a Tomcat application server; - J2EE tools : JSF and Struts frameworks, hibernate; - relational database management systems: PostgreSQL and MySQL; - OpenLDAP directory. In order to facilitate the access to the data by African scientists, the complete system has been mirrored at AGHRYMET Regional Centre in Niamey and is operational there since January 2009. Users can now access metadata and request data through one or the other of two equivalent portals: http://database.amma-international.org or http://amma.agrhymet.ne/amma-data.
DOE Office of Scientific and Technical Information (OSTI.GOV)

Abbott, Jennifer; Sandberg, Tami

The Wind-Wildlife Impacts Literature Database (WILD), formerly known as the Avian Literature Database, was created in 1997. The goal of the database was to begin tracking the research that detailed the potential impact of wind energy development on birds. The Avian Literature Database was originally housed on a proprietary platform called Livelink ECM from Open- Text and maintained by in-house technical staff. The initial set of records was added by library staff. A vital part of the newly launched Drupal-based WILD database is the Bibliography module. Many of the resources included in the database have digital object identifiers (DOI). Themore » bibliographic information for any item that has a DOI can be imported into the database using this module. This greatly reduces the amount of manual data entry required to add records to the database. The content available in WILD is international in scope, which can be easily discerned by looking at the tags available in the browse menu.« less
Development of an improved MATLAB GUI for the prediction of coefficients of restitution, and integration into LMS.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Baca, Renee Nicole; Congdon, Michael L.; Brake, Matthew Robert

In 2012, a Matlab GUI for the prediction of the coefficient of restitution was developed in order to enable the formulation of more accurate Finite Element Analysis (FEA) models of components. This report details the development of a new Rebound Dynamics GUI, and how it differs from the previously developed program. The new GUI includes several new features, such as source and citation documentation for the material database, as well as a multiple materials impact modeler for use with LMS Virtual.Lab Motion (LMS VLM), and a rigid body dynamics modeling software. The Rebound Dynamics GUI has been designed to workmore » with LMS VLM to enable straightforward incorporation of velocity-dependent coefficients of restitution in rigid body dynamics simulations.« less
Structural model constructing for optical handwritten character recognition

NASA Astrophysics Data System (ADS)

Khaustov, P. A.; Spitsyn, V. G.; Maksimova, E. I.

2017-02-01

The article is devoted to the development of the algorithms for optical handwritten character recognition based on the structural models constructing. The main advantage of these algorithms is the low requirement regarding the number of reference images. The one-pass approach to a thinning of the binary character representation has been proposed. This approach is based on the joint use of Zhang-Suen and Wu-Tsai algorithms. The effectiveness of the proposed approach is confirmed by the results of the experiments. The article includes the detailed description of the structural model constructing algorithm’s steps. The proposed algorithm has been implemented in character processing application and has been approved on MNIST handwriting characters database. Algorithms that could be used in case of limited reference images number were used for the comparison.
A topological multilayer model of the human body.

PubMed

Barbeito, Antonio; Painho, Marco; Cabral, Pedro; O'Neill, João

2015-11-04

Geographical information systems deal with spatial databases in which topological models are described with alphanumeric information. Its graphical interfaces implement the multilayer concept and provide powerful interaction tools. In this study, we apply these concepts to the human body creating a representation that would allow an interactive, precise, and detailed anatomical study. A vector surface component of the human body is built using a three-dimensional (3-D) reconstruction methodology. This multilayer concept is implemented by associating raster components with the corresponding vector surfaces, which include neighbourhood topology enabling spatial analysis. A root mean square error of 0.18 mm validated the three-dimensional reconstruction technique of internal anatomical structures. The expansion of the identification and the development of a neighbourhood analysis function are the new tools provided in this model.
Using a Relational Database to Index Infectious Disease Information

PubMed Central

Brown, Jay A.

2010-01-01

Mapping medical knowledge into a relational database became possible with the availability of personal computers and user-friendly database software in the early 1990s. To create a database of medical knowledge, the domain expert works like a mapmaker to first outline the domain and then add the details, starting with the most prominent features. The resulting “intelligent database” can support the decisions of healthcare professionals. The intelligent database described in this article contains profiles of 275 infectious diseases. Users can query the database for all diseases matching one or more specific criteria (symptom, endemic region of the world, or epidemiological factor). Epidemiological factors include sources (patients, water, soil, or animals), routes of entry, and insect vectors. Medical and public health professionals could use such a database as a decision-support software tool. PMID:20623018
Principal component analysis acceleration of rovibrational coarse-grain models for internal energy excitation and dissociation

NASA Astrophysics Data System (ADS)

Bellemans, Aurélie; Parente, Alessandro; Magin, Thierry

2018-04-01

The present work introduces a novel approach for obtaining reduced chemistry representations of large kinetic mechanisms in strong non-equilibrium conditions. The need for accurate reduced-order models arises from compression of large ab initio quantum chemistry databases for their use in fluid codes. The method presented in this paper builds on existing physics-based strategies and proposes a new approach based on the combination of a simple coarse grain model with Principal Component Analysis (PCA). The internal energy levels of the chemical species are regrouped in distinct energy groups with a uniform lumping technique. Following the philosophy of machine learning, PCA is applied on the training data provided by the coarse grain model to find an optimally reduced representation of the full kinetic mechanism. Compared to recently published complex lumping strategies, no expert judgment is required before the application of PCA. In this work, we will demonstrate the benefits of the combined approach, stressing its simplicity, reliability, and accuracy. The technique is demonstrated by reducing the complex quantum N2(g+1Σ) -N(S4u ) database for studying molecular dissociation and excitation in strong non-equilibrium. Starting from detailed kinetics, an accurate reduced model is developed and used to study non-equilibrium properties of the N2(g+1Σ) -N(S4u ) system in shock relaxation simulations.
Data management with a landslide inventory of the Franconian Alb (Germany) using a spatial database and GIS tools

NASA Astrophysics Data System (ADS)

Bemm, Stefan; Sandmeier, Christine; Wilde, Martina; Jaeger, Daniel; Schwindt, Daniel; Terhorst, Birgit

2014-05-01

The area of the Swabian-Franconian cuesta landscape (Southern Germany) is highly prone to landslides. This was apparent in the late spring of 2013, when numerous landslides occurred as a consequence of heavy and long-lasting rainfalls. The specific climatic situation caused numerous damages with serious impact on settlements and infrastructure. Knowledge on spatial distribution of landslides, processes and characteristics are important to evaluate the potential risk that can occur from mass movements in those areas. In the frame of two projects about 400 landslides were mapped and detailed data sets were compiled during years 2011 to 2014 at the Franconian Alb. The studies are related to the project "Slope stability and hazard zones in the northern Bavarian cuesta" (DFG, German Research Foundation) as well as to the LfU (The Bavarian Environment Agency) within the project "Georisks and climate change - hazard indication map Jura". The central goal of the present study is to create a spatial database for landslides. The database should contain all fundamental parameters to characterize the mass movements and should provide the potential for secure data storage and data management, as well as statistical evaluations. The spatial database was created with PostgreSQL, an object-relational database management system and PostGIS, a spatial database extender for PostgreSQL, which provides the possibility to store spatial and geographic objects and to connect to several GIS applications, like GRASS GIS, SAGA GIS, QGIS and GDAL, a geospatial library (Obe et al. 2011). Database access for querying, importing, and exporting spatial and non-spatial data is ensured by using GUI or non-GUI connections. The database allows the use of procedural languages for writing advanced functions in the R, Python or Perl programming languages. It is possible to work directly with the (spatial) data entirety of the database in R. The inventory of the database includes (amongst others), informations on location, landslide types and causes, geomorphological positions, geometries, hazards and damages, as well as assessments related to the activity of landslides. Furthermore, there are stored spatial objects, which represent the components of a landslide, in particular the scarps and the accumulation areas. Besides, waterways, map sheets, contour lines, detailed infrastructure data, digital elevation models, aspect and slope data are included. Examples of spatial queries to the database are intersections of raster and vector data for calculating values for slope gradients or aspects of landslide areas and for creating multiple, overlaying sections for the comparison of slopes, as well as distances to the infrastructure or to the next receiving drainage. Furthermore, getting informations on landslide magnitudes, distribution and clustering, as well as potential correlations concerning geomorphological or geological conditions. The data management concept in this study can be implemented for any academic, public or private use, because it is independent from any obligatory licenses. The created spatial database offers a platform for interdisciplinary research and socio-economic questions, as well as for landslide susceptibility and hazard indication mapping. Obe, R.O., Hsu, L.S. 2011. PostGIS in action. - pp 492, Manning Publications, Stamford
Preliminary surficial geologic map of the Newberry Springs 30' x 60' quadrangle, California

USGS Publications Warehouse

Phelps, G.A.; Bedford, D.R.; Lidke, D.J.; Miller, D.M.; Schmidt, K.M.

2012-01-01

The Newberry Springs 30' x 60' quadrangle is located in the central Mojave Desert of southern California. It is split approximately into northern and southern halves by I-40, with the city of Barstow at its western edge and the town of Ludlow near its eastern edge. The map area spans lat 34°30 to 35° N. to long -116 °to -117° W. and covers over 1,000 km2. We integrate the results of surficial geologic mapping conducted during 2002-2005 with compilations of previous surficial mapping and bedrock geologic mapping. Quaternary units are subdivided in detail on the map to distinguish variations in age, process of formation, pedogenesis, lithology, and spatial interdependency, whereas pre-Quaternary bedrock units are grouped into generalized assemblages that emphasize their attributes as hillslope-forming materials and sources of parent material for the Quaternary units. The spatial information in this publication is presented in two forms: a spatial database and a geologic map. The geologic map is a view (the display of an extracted subset of the database at a given time) of the spatial database; it highlights key aspects of the database and necessarily does not show all of the data contained therein. The database contains detailed information about Quaternary geologic unit composition, authorship, and notes regarding geologic units, faults, contacts, and local vegetation. The amount of information contained in the database is too large to show on a single map, so a restricted subset of the information was chosen to summarize the overall nature of the geology. Refer to the database for additional information. Accompanying the spatial data are the map documentation and spatial metadata. The map documentation (this document) describes the geologic setting and history of the Newberry Springs map sheet, summarizes the age and physical character of each map unit, and describes principal faults and folds. The Federal Geographic Data Committee (FGDC) compliant metadata provides detailed information about the digital files and file structure of the spatial data.
Depth image enhancement using perceptual texture priors

NASA Astrophysics Data System (ADS)

Bang, Duhyeon; Shim, Hyunjung

2015-03-01

A depth camera is widely used in various applications because it provides a depth image of the scene in real time. However, due to the limited power consumption, the depth camera presents severe noises, incapable of providing the high quality 3D data. Although the smoothness prior is often employed to subside the depth noise, it discards the geometric details so to degrade the distance resolution and hinder achieving the realism in 3D contents. In this paper, we propose a perceptual-based depth image enhancement technique that automatically recovers the depth details of various textures, using a statistical framework inspired by human mechanism of perceiving surface details by texture priors. We construct the database composed of the high quality normals. Based on the recent studies in human visual perception (HVP), we select the pattern density as a primary feature to classify textures. Upon the classification results, we match and substitute the noisy input normals with high quality normals in the database. As a result, our method provides the high quality depth image preserving the surface details. We expect that our work is effective to enhance the details of depth image from 3D sensors and to provide a high-fidelity virtual reality experience.
Meteorological Effects of Land Cover Changes in Hungary during the 20th Century

NASA Astrophysics Data System (ADS)

Drüszler, Á.; Vig, P.; Csirmaz, K.

2012-04-01

Geological, paleontological and geomorphologic studies show that the Earth's climate has always been changing since it came into existence. The climate change itself is self-evident. Therefore the far more serious question is how much does mankind strengthen or weaken these changes beyond the natural fluctuation and changes of climate. The aim of the present study was to restore the historical land cover changes and to simulate the meteorological consequences of these changes. Two different land cover maps for Hungary were created in vector data format using GIS technology. The land cover map for 1900 was reconstructed based on statistical data and two different historical maps: the derived map of the 3rd Military Mapping Survey of the Austro-Hungarian Empire and the Synoptic Forestry Map of the Kingdom of Hungary. The land cover map for 2000 was derived from the CORINE land cover database. Significant land cover changes were found in Hungary during the 20th century according to the examinations of these maps and statistical databases. The MM5 non-hydrostatic dynamic model was used to further evaluate the meteorological effects of these changes. The lower boundary conditions for this mesoscale model were generated for two selected time periods (for 1900 and 2000) based on the reconstructed maps. The dynamic model has been run with the same detailed meteorological conditions of selected days from 2006 and 2007, but with modified lower boundary conditions. The set of the 26 selected initial conditions represents the whole set of the macrosynoptic situations for Hungary. In this way, 2×26 "forecasts" were made with 48 hours of integration. The effects of land cover changes under different weather situations were further weighted by the long-term (1961-1990) mean frequency of the corresponding macrosynoptic types, to assume the climatic effects from these stratified averages. The detailed evaluation of the model results were made for three different meteorological variables (temperature, dew point and precipitation).
Making use of equine population demography for disease control purposes: preliminary observations on the difficulties of counting and locating horses in Great Britain.

PubMed

Robin, C A; Wylie, C E; Wood, J L N; Newton, J R

2011-05-01

Detailed knowledge of horse populations can better facilitate effective control of equine diseases. Preliminary studies were undertaken to ascertain the type of information held on the UK's National Equine Database (NED) and to determine the geographical resolution at which mandatorily recorded owner addresses might be a suitable proxy for predicting horse locations. Results indicated that relatively few UK passport-issuing organisations requested details of where horses were kept in addition to owner address details. Examination of data on 1440 horses held on an Animal Health Trust syndromic surveillance database showed that 90% of them were kept within 10 km of their owners. While owner location may provide an indication of where most horses are kept, further work is also needed to evaluate the usefulness of NED as an epidemiological resource in future equine disease control measures. © 2010 EVJ Ltd.
The 2006 Cape Canaveral Air Force Station Range Reference Atmosphere Model Validation Study and Sensitivity Analysis to the National Aeronautics and Space Administration's Space Shuttle

NASA Technical Reports Server (NTRS)

Burns, Lee; Merry, Carl; Decker, Ryan; Harrington, Brian

2008-01-01

The 2006 Cape Canaveral Air Force Station (CCAFS) Range Reference Atmosphere (RRA) is a statistical model summarizing the wind and thermodynamic atmospheric variability from surface to 70 kin. Launches of the National Aeronautics and Space Administration's (NASA) Space Shuttle from Kennedy Space Center utilize CCAFS RRA data to evaluate environmental constraints on various aspects of the vehicle during ascent. An update to the CCAFS RRA was recently completed. As part of the update, a validation study on the 2006 version was conducted as well as a comparison analysis of the 2006 version to the existing CCAFS RRA database version 1983. Assessments to the Space Shuttle vehicle ascent profile characteristics were performed to determine impacts of the updated model to the vehicle performance. Details on the model updates and the vehicle sensitivity analyses with the update model are presented.

Identification of volatile and semivolatile compounds in chemical ionization GC-MS using a mass-to-structure (MTS) Search Engine with integral isotope pattern ranking.

PubMed

Liao, Wenta; Draper, William M

2013-02-21

The mass-to-structure or MTS Search Engine is an Access 2010 database containing theoretical molecular mass information for 19,438 compounds assembled from common sources such as the Merck Index, pesticide and pharmaceutical compilations, and chemical catalogues. This database, which contains no experimental mass spectral data, was developed as an aid to identification of compounds in atmospheric pressure ionization (API)-LC-MS. This paper describes a powerful upgrade to this database, a fully integrated utility for filtering or ranking candidates based on isotope ratios and patterns. The new MTS Search Engine is applied here to the identification of volatile and semivolatile compounds including pesticides, nitrosoamines and other pollutants. Methane and isobutane chemical ionization (CI) GC-MS spectra were obtained from unit mass resolution mass spectrometers to determine MH(+) masses and isotope ratios. Isotopes were measured accurately with errors of <4% and <6%, respectively, for A + 1 and A + 2 peaks. Deconvolution of interfering isotope clusters (e.g., M(+) and [M - H](+)) was required for accurate determination of the A + 1 isotope in halogenated compounds. Integrating the isotope data greatly improved the speed and accuracy of the database identifications. The database accurately identified unknowns from isobutane CI spectra in 100% of cases where as many as 40 candidates satisfied the mass tolerance. The paper describes the development and basic operation of the new MTS Search Engine and details performance testing with over 50 model compounds.
DOE technology information management system database study report

DOE Office of Scientific and Technical Information (OSTI.GOV)

Widing, M.A.; Blodgett, D.W.; Braun, M.D.

1994-11-01

To support the missions of the US Department of Energy (DOE) Special Technologies Program, Argonne National Laboratory is defining the requirements for an automated software system that will search electronic databases on technology. This report examines the work done and results to date. Argonne studied existing commercial and government sources of technology databases in five general areas: on-line services, patent database sources, government sources, aerospace technology sources, and general technology sources. First, it conducted a preliminary investigation of these sources to obtain information on the content, cost, frequency of updates, and other aspects of their databases. The Laboratory then performedmore » detailed examinations of at least one source in each area. On this basis, Argonne recommended which databases should be incorporated in DOE`s Technology Information Management System.« less
Comparison of the Frontier Distributed Database Caching System to NoSQL Databases

NASA Astrophysics Data System (ADS)

Dykstra, Dave

2012-12-01

One of the main attractions of non-relational “NoSQL” databases is their ability to scale to large numbers of readers, including readers spread over a wide area. The Frontier distributed database caching system, used in production by the Large Hadron Collider CMS and ATLAS detector projects for Conditions data, is based on traditional SQL databases but also adds high scalability and the ability to be distributed over a wide-area for an important subset of applications. This paper compares the major characteristics of the two different approaches and identifies the criteria for choosing which approach to prefer over the other. It also compares in some detail the NoSQL databases used by CMS and ATLAS: MongoDB, CouchDB, HBase, and Cassandra.
The unified database for the fixed target experiment BM@N

NASA Astrophysics Data System (ADS)

Gertsenberger, K. V.

2016-09-01

The article describes the developed database designed as comprehensive data storage of the fixed target experiment BM@N [1] at Joint Institute for Nuclear Research (JINR) in Dubna. The structure and purposes of the BM@N facility will be briefly presented. The scheme of the unified database and its parameters will be described in detail. The use of the BM@N database implemented on the PostgreSQL database management system (DBMS) allows one to provide user access to the actual information of the experiment. Also the interfaces developed for the access to the database will be presented. One was implemented as the set of C++ classes to access the data without SQL statements, the other-Web-interface being available on the Web page of the BM@N experiment.
Comparison of the Frontier Distributed Database Caching System to NoSQL Databases

DOE Office of Scientific and Technical Information (OSTI.GOV)

Dykstra, Dave

One of the main attractions of non-relational NoSQL databases is their ability to scale to large numbers of readers, including readers spread over a wide area. The Frontier distributed database caching system, used in production by the Large Hadron Collider CMS and ATLAS detector projects for Conditions data, is based on traditional SQL databases but also adds high scalability and the ability to be distributed over a wide-area for an important subset of applications. This paper compares the major characteristics of the two different approaches and identifies the criteria for choosing which approach to prefer over the other. It alsomore » compares in some detail the NoSQL databases used by CMS and ATLAS: MongoDB, CouchDB, HBase, and Cassandra.« less
Toward a public analysis database for LHC new physics searches using M ADA NALYSIS 5

NASA Astrophysics Data System (ADS)

Dumont, B.; Fuks, B.; Kraml, S.; Bein, S.; Chalons, G.; Conte, E.; Kulkarni, S.; Sengupta, D.; Wymant, C.

2015-02-01

We present the implementation, in the MadAnalysis 5 framework, of several ATLAS and CMS searches for supersymmetry in data recorded during the first run of the LHC. We provide extensive details on the validation of our implementations and propose to create a public analysis database within this framework.
Teradata University Network: A No Cost Web-Portal for Teaching Database, Data Warehousing, and Data-Related Subjects

ERIC Educational Resources Information Center

Jukic, Nenad; Gray, Paul

2008-01-01

This paper describes the value that information systems faculty and students in classes dealing with database management, data warehousing, decision support systems, and related topics, could derive from the use of the Teradata University Network (TUN), a free comprehensive web-portal. A detailed overview of TUN functionalities and content is…
Publications - MP 141 | Alaska Division of Geological & Geophysical Surveys

Science.gov Websites

DGGS MP 141 Publication Details Title: Quaternary faults and folds in Alaska: A digital database Combellick, R.A., 2012, Quaternary faults and folds in Alaska: A digital database, in Koehler, R.D Quaternary faults, scale 1:3,700,000 (63.0 M) Digital Geospatial Data Digital Geospatial Data Quaternary
The Unified North American Soil Map and Its Implication on the Soil Organic Carbon Stock in North America

NASA Astrophysics Data System (ADS)

Wei, Y.; Liu, S.; Huntzinger, D. N.; Michalak, A. M.; Post, W. M.; Cook, R. B.; Schaefer, K. M.; Thornton, M.

2014-12-01

The Unified North American Soil Map (UNASM) was developed by Multi-scale Synthesis and Terrestrial Model Intercomparison Project (MsTMIP) to provide more accurate regional soil information for terrestrial biosphere modeling. The UNASM combines information from state-of-the-art US STATSGO2 and Soil Landscape of Canada (SLCs) databases. The area not covered by these datasets is filled by using the Harmonized World Soil Database version 1.21 (HWSD1.21). The UNASM contains maximum soil depth derived from the data source as well as seven soil attributes (including sand, silt, and clay content, gravel content, organic carbon content, pH, and bulk density) for the topsoil layer (0-30 cm) and the subsoil layer (30-100 cm), respectively, of the spatial resolution of 0.25 degrees in latitude and longitude. There are pronounced differences in the spatial distributions of soil properties and soil organic carbon between UNASM and HWSD, but the UNASM overall provides more detailed and higher-quality information particularly in Alaska and central Canada. To provide more accurate and up-to-date estimate of soil organic carbon stock in North America, we incorporated Northern Circumpolar Soil Carbon Database (NCSCD) into the UNASM. The estimate of total soil organic carbon mass in the upper 100 cm soil profile based on the improved UNASM is 365.96 Pg, of which 23.1% is under trees, 14.1% is in shrubland, and 4.6% is in grassland and cropland. This UNASM data has been provided as a resource for use in terrestrial ecosystem modeling of MsTMIP both for input of soil characteristics and for benchmarking model output.
Tephrabase: A tephrochronological data

NASA Astrophysics Data System (ADS)

Newton, Anthony

2015-04-01

Development of Tephrabase, a tephrochronological database,, began over 20 years ago and was it launched in June 1995 as one of the earliest scientific databases on the web. Tephrabase was designed from the start to include a wide range of tephrochronological data including location, depth of the layer, geochemical composition (major to trace elements), physical properties (colour, grainsize, and mineral components), dating (both absolute/historical and radiometric), details of eruptions and the history of volcanic centres, as well as a reference database. Currently, Tephrabase contains details of over 1000 sites where tephra layers have been found, 3500 tephra layers, 3500 geochemical analyses and 2500 references. Tephrabase was originally developed to include tephra layers in Iceland and those of Icelandic origin found in NW Europe, it also now includes data on tephra layers from central Mexico and from the Laacher See eruption. The latter was developed as a supplement to the Iceland-centric nature of the rest of Tephrabase. A further extension to Tephrabase has seen the development of an automated method of producing tephra stratigraphic columns, calculating sediment accumulation rates between dated tephra layers in multiple profiles and mapping tephra layers across the landscape. Whilst Tephrabase has been successful and continues to be developed and updated, there are several issues which need to be. More tephrochronological databases need to be developed and these should allow connected/shared searches. This would provide worldwide coverage, but also the flexibility to develop spin off small-scale extensions, such as those described above. Data uploading needs to be improved and simplified. This includes the need to clarify issues of quality control. Again, a common standards led approach to this seems appropriate. Researchers also need to be encouraged to contribute data to these databases. Tephrabase was designed to include a variety of data, including physical properties and trace element compositions of the tephra layers. However, Tephrabase is conspicuous by not containing these data. Tephrabase and other databases need to include these. Tephra databases need to not only record details about tephra layers, but should also be tools to understand environmental change and understand volcanic histories. These can be achieved through development of databases themselves and through the creations of portals which draw data from multiple data sources.
The Unified North American Soil Map and its implication on the soil organic carbon stock in North America

NASA Astrophysics Data System (ADS)

Liu, S.; Wei, Y.; Post, W. M.; Cook, R. B.; Schaefer, K.; Thornton, M. M.

2013-05-01

The Unified North American Soil Map (UNASM) was developed to provide more accurate regional soil information for terrestrial biosphere modeling. The UNASM combines information from state-of-the-art US STATSGO2 and Soil Landscape of Canada (SLCs) databases. The area not covered by these datasets is filled by using the Harmonized World Soil Database version 1.21 (HWSD1.21). The UNASM contains maximum soil depth derived from the data source as well as seven soil attributes (including sand, silt, and clay content, gravel content, organic carbon content, pH, and bulk density) for the topsoil layer (0-30 cm) and the subsoil layer (30-100 cm), respectively, of the spatial resolution of 0.25 degrees in latitude and longitude. There are pronounced differences in the spatial distributions of soil properties and soil organic carbon between UNASM and HWSD, but the UNASM overall provides more detailed and higher-quality information particularly in Alaska and central Canada. To provide more accurate and up-to-date estimate of soil organic carbon stock in North America, we incorporated Northern Circumpolar Soil Carbon Database (NCSCD) into the UNASM. The estimate of total soil organic carbon mass in the upper 100 cm soil profile based on the improved UNASM is 365.96 Pg, of which 23.1% is under trees, 14.1% is in shrubland, and 4.6% is in grassland and cropland. This UNASM data will provide a resource for use in terrestrial ecosystem modeling both for input of soil characteristics and for benchmarking model output.
The Unified North American Soil Map and its implication on the soil organic carbon stock in North America

NASA Astrophysics Data System (ADS)

Liu, S.; Wei, Y.; Post, W. M.; Cook, R. B.; Schaefer, K.; Thornton, M. M.

2012-10-01

The Unified North American Soil Map (UNASM) was developed to provide more accurate regional soil information for terrestrial biosphere modeling. The UNASM combines information from state-of-the-art US STATSGO2 and Soil Landscape of Canada (SLCs) databases. The area not covered by these datasets is filled with the Harmonized World Soil Database version 1.1 (HWSD1.1). The UNASM contains maximum soil depth derived from the data source as well as seven soil attributes (including sand, silt, and clay content, gravel content, organic carbon content, pH, and bulk density) for the top soil layer (0-30 cm) and the sub soil layer (30-100 cm) respectively, of the spatial resolution of 0.25° in latitude and longitude. There are pronounced differences in the spatial distributions of soil properties and soil organic carbon between UNASM and HWSD, but the UNASM overall provides more detailed and higher-quality information particularly in Alaska and Central Canada. To provide more accurate and up-to-date estimate of soil organic carbon stock in North America, we incorporated Northern Circumpolar Soil Carbon Database (NCSCD) into the UNASM. The estimate of total soil organic carbon mass in the upper 100 cm soil profile based on the improved UNASM is 347.70 Pg, of which 24.7% is under trees, 14.2% is under shrubs, and 1.3% is under grasses and 3.8% under crops. This UNASM data will provide a resource for use in land surface and terrestrial biogeochemistry modeling both for input of soil characteristics and for benchmarking model output.
Global and regional ecosystem modeling: comparison of model outputs and field measurements

NASA Astrophysics Data System (ADS)

Olson, R. J.; Hibbard, K.

2003-04-01

The Ecosystem Model-Data Intercomparison (EMDI) Workshops provide a venue for global ecosystem modeling groups to compare model outputs against measurements of net primary productivity (NPP). The objective of EMDI Workshops is to evaluate model performance relative to observations in order to improve confidence in global model projections terrestrial carbon cycling. The questions addressed by EMDI include: How does the simulated NPP compare with the field data across biome and environmental gradients? How sensitive are models to site-specific climate? Does additional mechanistic detail in models result in a better match with field measurements? How useful are the measures of NPP for evaluating model predictions? How well do models represent regional patterns of NPP? Initial EMDI results showed general agreement between model predictions and field measurements but with obvious differences that indicated areas for potential data and model improvement. The effort was built on the development and compilation of complete and consistent databases for model initialization and comparison. Database development improves the data as well as models; however, there is a need to incorporate additional observations and model outputs (LAI, hydrology, etc.) for comprehensive analyses of biogeochemical processes and their relationships to ecosystem structure and function. EMDI initialization and NPP data sets are available from the Oak Ridge National Laboratory Distributed Active Archive Center http://www.daac.ornl.gov/. Acknowledgements: This work was partially supported by the International Geosphere-Biosphere Programme - Data and Information System (IGBP-DIS); the IGBP-Global Analysis, Interpretation and Modelling Task Force (GAIM); the National Center for Ecological Analysis and Synthesis (NCEAS); and the National Aeronautics and Space Administration (NASA) Terrestrial Ecosystem Program. Oak Ridge National Laboratory is managed by UT-Battelle LLC for the U.S. Department of Energy under contract DE-AC05-00OR22725
Forecasting database for the tsunami warning regional center for the western Mediterranean Sea

NASA Astrophysics Data System (ADS)

Gailler, A.; Hebert, H.; Loevenbruck, A.; Hernandez, B.

2010-12-01

Improvements in the availability of sea-level observations and advances in numerical modeling techniques are increasing the potential for tsunami warnings to be based on numerical model forecasts. Numerical tsunami propagation and inundation models are well developed, but they present a challenge to run in real-time, partly due to computational limitations and also to a lack of detailed knowledge on the earthquake rupture parameters. Through the establishment of the tsunami warning regional center for NE Atlantic and western Mediterranean Sea, the CEA is especially in charge of providing rapidly a map with uncertainties showing zones in the main axis of energy at the Mediterranean scale. The strategy is based initially on a pre-computed tsunami scenarios database, as source parameters available a short time after an earthquake occurs are preliminary and may be somewhat inaccurate. Existing numerical models are good enough to provide a useful guidance for warning structures to be quickly disseminated. When an event will occur, an appropriate variety of offshore tsunami propagation scenarios by combining pre-computed propagation solutions (single or multi sources) may be recalled through an automatic interface. This approach would provide quick estimates of tsunami offshore propagation, and aid hazard assessment and evacuation decision-making. As numerical model accuracy is inherently limited by errors in bathymetry and topography, and as inundation maps calculation is more complex and expensive in term of computational time, only tsunami offshore propagation modeling will be included in the forecasting database using a single sparse bathymetric computation grid for the numerical modeling. Because of too much variability in the mechanism of tsunamigenic earthquakes, all possible magnitudes cannot be represented in the scenarios database. In principle, an infinite number of tsunami propagation scenarios can be constructed by linear combinations of a finite number of pre-computed unit scenarios. The whole notion of a pre-computed forecasting database also requires a historical earthquake and tsunami database, as well as an up-to-date seismotectonic database including faults geometry and a zonation based on seismotectonic synthesis of source zones and tsunamigenic faults. Our forecast strategy is thus based on a unit source function methodology, whereby the model runs are combined and scaled linearly to produce any composite tsunamis propagation solution. Each unit source function is equivalent to a tsunami generated by a Mo 1.75E+19 N.m earthquake (Mw ~6.8) with a rectangular fault 25 km by 20 km in size and 1 m in slip. The faults of the unit functions are placed adjacent to each other, following the discretization of the main seismogenic faults bounding the western Mediterranean basin. The number of unit functions involved varies with the magnitude of the wanted composite solution and the combined waveheights are multiplied by a given scaling factor to produce the new arbitrary scenario. Some test-cases examples are presented (e.g., Boumerdès 2003 [Algeria, Mw 6.8], Djijel 1856 [Algeria, Mw 7.2], Ligure 1887 [Italia, Mw 6.5-6.7]).
It's time for a crisper image of the Face of the Earth: Landsat and climate time series for massive land cover & climate change mapping at detailed resolution.

NASA Astrophysics Data System (ADS)

Pons, Xavier; Miquel, Ninyerola; Oscar, González-Guerrero; Cristina, Cea; Pere, Serra; Alaitz, Zabala; Lluís, Pesquer; Ivette, Serral; Joan, Masó; Cristina, Domingo; Maria, Serra Josep; Jordi, Cristóbal; Chris, Hain; Martha, Anderson; Juanjo, Vidal

2014-05-01

Combining climate dynamics and land cover at a relative coarse resolution allows a very interesting approach to global studies, because in many cases these studies are based on a quite high temporal resolution, but they may be limited in large areas like the Mediterranean. However, the current availability of long time series of Landsat imagery and spatially detailed surface climate models allow thinking on global databases improving the results of mapping in areas with a complex history of landscape dynamics, characterized by fragmentation, or areas where relief creates intricate climate patterns that can be hardly monitored or modeled at coarse spatial resolutions. DinaCliVe (supported by the Spanish Government and ERDF, and by the Catalan Government, under grants CGL2012-33927 and SGR2009-1511) is the name of the project that aims analyzing land cover and land use dynamics as well as vegetation stress, with a particular emphasis on droughts, and the role that climate variation may have had in such phenomena. To meet this objective is proposed to design a massive database from long time series of Landsat land cover products (grouped in quinquennia) and monthly climate records (in situ climate data) for the Iberian Peninsula (582,000 km2). The whole area encompasses 47 Landsat WRS2 scenes (Landsat 4 to 8 missions, from path 197 to 202 and from rows 30 to 34), and 52 Landsat WRS1 scenes (for the previous Landsat missions, 212 to 221 and 30 to 34). Therefore, a mean of 49.5 Landsat scenes, 8 quinquennia per scene and a about 6 dates per quinquennium , from 1975 to present, produces around 2376 sets resulting in 30 m x 30 m spatial resolution maps. Each set is composed by highly coherent geometric and radiometric multispectral and multitemporal (to account for phenology) imagery as well as vegetation and wetness indexes, and several derived topographic information (about 10 Tbyte of data). Furthermore, on the basis on a previous work: the Digital Climatic Atlas of the Iberian Peninsula, spatio-temporal surface climate data has been generated with a monthly resolution (from January 1950 to December 2010) through a multiple regression model and residuals spatial interpolation using geographic variables (altitude, latitude and continentality) and solar radiation (only in the case of temperatures). This database includes precipitation, mean minimum and mean maximum air temperature and mean air temperature, improving the previous one by using the ASTER GDEM at 30 m spatial resolution, by deepening to a monthly resolution and by increasing the number of meteorological stations used, representing a total amount of 0.7 Tbyte of data. An initial validation shows accuracies higher than 85 % for land cover maps and an RMS of 1.2 ºC, 1.6 ºC and 22 mm for mean and extreme temperatures, and for precipitation, respectively. This amount of new detailed data for the Iberian Peninsula framework will be used to study the spatial direction, velocity and acceleration of the tendencies related to climate change, land cover and tree line dynamics. A global analysis using all these datasets will try to discriminate the climatic signal when interpreted together with anthropogenic driving forces. Ultimately, getting ready for massive database computation and analysis will improve predictions for global models that will require of the growing high-resolution information available.
DOE Office of Scientific and Technical Information (OSTI.GOV)

MANDELL, JOHN F.; SAMBORSKY, DANIEL D.; CAIRNS, DOUGLAS

This report presents the major findings of the Montana State University Composite Materials Fatigue Program from 1997 to 2001, and is intended to be used in conjunction with the DOE/MSU Composite Materials Fatigue Database. Additions of greatest interest to the database in this time period include environmental and time under load effects for various resin systems; large tow carbon fiber laminates and glass/carbon hybrids; new reinforcement architectures varying from large strands to prepreg with well-dispersed fibers; spectrum loading and cumulative damage laws; giga-cycle testing of strands; tough resins for improved structural integrity; static and fatigue data for interply delamination; andmore » design knockdown factors due to flaws and structural details as well as time under load and environmental conditions. The origins of a transition to increased tensile fatigue sensitivity with increasing fiber content are explored in detail for typical stranded reinforcing fabrics. The second focus of the report is on structural details which are prone to delamination failure, including ply terminations, skin-stiffener intersections, and sandwich panel terminations. Finite element based methodologies for predicting delamination initiation and growth in structural details are developed and validated, and simplified design recommendations are presented.« less
Aerodynamics of high aspect-ratio sails

NASA Astrophysics Data System (ADS)

Crook, Andrew; Gerritsen, Margot

2003-11-01

Experiments studying the aerodynamics of a 25circular-arc sail section (representative of an AC gennaker cross-section) have been undertaken in the 7x10 ft tunnels at NASA-Ames and Georgia Tech. The aims of the study are to gain a deeper physical understanding of the flow past downwind sails at various angles of incidence and Reynolds numbers, and to create a comprehensive database for validation of numerical models and turbulence models used by the yacht research community and competitive sailing industry. The reason for testing a rectangular planform sail with no spanwise variation in twist or cross-section is to first provide a detailed understanding of the flow topology around generic sail sections. Currently, data of sufficient accuracy to be used for CFD validation are not available. 3D experiments with realistic sail planforms and twisted onset flow are planned for the future. Two models have been tested, one with an AR of 15 and constructed from steel and the other with an AR of 10 and constructed from carbon-fiber and foam. The latter model has pressure tappings, whilst the former was coated with PSP. Pressure distributions, surface flow visualization and PIV reveal the details of the changing flow patterns and separation types with varying angle of incidence.
BioModels.net Web Services, a free and integrated toolkit for computational modelling software.

PubMed

Li, Chen; Courtot, Mélanie; Le Novère, Nicolas; Laibe, Camille

2010-05-01

Exchanging and sharing scientific results are essential for researchers in the field of computational modelling. BioModels.net defines agreed-upon standards for model curation. A fundamental one, MIRIAM (Minimum Information Requested in the Annotation of Models), standardises the annotation and curation process of quantitative models in biology. To support this standard, MIRIAM Resources maintains a set of standard data types for annotating models, and provides services for manipulating these annotations. Furthermore, BioModels.net creates controlled vocabularies, such as SBO (Systems Biology Ontology) which strictly indexes, defines and links terms used in Systems Biology. Finally, BioModels Database provides a free, centralised, publicly accessible database for storing, searching and retrieving curated and annotated computational models. Each resource provides a web interface to submit, search, retrieve and display its data. In addition, the BioModels.net team provides a set of Web Services which allows the community to programmatically access the resources. A user is then able to perform remote queries, such as retrieving a model and resolving all its MIRIAM Annotations, as well as getting the details about the associated SBO terms. These web services use established standards. Communications rely on SOAP (Simple Object Access Protocol) messages and the available queries are described in a WSDL (Web Services Description Language) file. Several libraries are provided in order to simplify the development of client software. BioModels.net Web Services make one step further for the researchers to simulate and understand the entirety of a biological system, by allowing them to retrieve biological models in their own tool, combine queries in workflows and efficiently analyse models.
Estimation of vulnerability functions based on a global earthquake damage database

NASA Astrophysics Data System (ADS)

Spence, R. J. S.; Coburn, A. W.; Ruffle, S. J.

2009-04-01

Developing a better approach to the estimation of future earthquake losses, and in particular to the understanding of the inherent uncertainties in loss models, is vital to confidence in modelling potential losses in insurance or for mitigation. For most areas of the world there is currently insufficient knowledge of the current building stock for vulnerability estimates to be based on calculations of structural performance. In such areas, the most reliable basis for estimating vulnerability is performance of the building stock in past earthquakes, using damage databases, and comparison with consistent estimates of ground motion. This paper will present a new approach to the estimation of vulnerabilities using the recently launched Cambridge University Damage Database (CUEDD). CUEDD is based on data assembled by the Martin Centre at Cambridge University since 1980, complemented by other more-recently published and some unpublished data. The database assembles in a single, organised, expandable and web-accessible database, summary information on worldwide post-earthquake building damage surveys which have been carried out since the 1960's. Currently it contains data on the performance of more than 750,000 individual buildings, in 200 surveys following 40 separate earthquakes. The database includes building typologies, damage levels, location of each survey. It is mounted on a GIS mapping system and links to the USGS Shakemaps of each earthquake which enables the macroseismic intensity and other ground motion parameters to be defined for each survey and location. Fields of data for each building damage survey include: · Basic earthquake data and its sources · Details of the survey location and intensity and other ground motion observations or assignments at that location · Building and damage level classification, and tabulated damage survey results · Photos showing typical examples of damage. In future planned extensions of the database information on human casualties will also be assembled. The database also contains analytical tools enabling data from similar locations, building classes or ground motion levels to be assembled and thus vulnerability relationships derived for any chosen ground motion parameter, for a given class of building, and for particular countries or regions. The paper presents examples of vulnerability relationships for particular classes of buildings and regions of the world, together with the estimated uncertainty ranges. It will discuss the applicability of such vulnerability functions in earthquake loss assessment for insurance purposes or for earthquake risk mitigation.
DOE Office of Scientific and Technical Information (OSTI.GOV)

Dykstra, D.; Blomer, J.

Both the CernVM File System (CVMFS) and the Frontier Distributed Database Caching System (Frontier) distribute centrally updated data worldwide for LHC experiments using http proxy caches. Neither system provides privacy or access control on reading the data, but both control access to updates of the data and can guarantee the authenticity and integrity of the data transferred to clients over the internet. CVMFS has since its early days required digital signatures and secure hashes on all distributed data, and recently Frontier has added X.509-based authenticity and integrity checking. In this paper we detail and compare the security models of CVMFSmore » and Frontier.« less

Prioritising sewerage maintenance using inferred sewer age: a case study for Edinburgh.

PubMed

Arthur, S; Burkhard, R

2010-01-01

The reported research project focuses on using a database which contains details of customer contacts and CCTV data for a key Scottish catchment to construct a GIS based sewer condition model. Given the nature of the asset registry, a key research challenge was estimating the age of individual lengths of pipe. Within this context, asset age was inferred using the estimated age of surface developments-this involved overlaying the network in a GIS with historical digital maps. The paper illustrates that inferred asset age can reliably be used to highlight assets which are more likely to fail.
Ground vibration tests of a high fidelity truss for verification of on orbit damage location techniques

NASA Technical Reports Server (NTRS)

Kashangaki, Thomas A. L.

1992-01-01

This paper describes a series of modal tests that were performed on a cantilevered truss structure. The goal of the tests was to assemble a large database of high quality modal test data for use in verification of proposed methods for on orbit model verification and damage detection in flexible truss structures. A description of the hardware is provided along with details of the experimental setup and procedures for 16 damage cases. Results from selected cases are presented and discussed. Differences between ground vibration testing and on orbit modal testing are also described.
Studying Turbulence Using Numerical Simulation Databases, 2. Proceedings of the 1988 Summer Program

NASA Technical Reports Server (NTRS)

1988-01-01

The focus of the program was on the use of direct numerical simulations of turbulent flow for study of turbulence physics and modeling. A special interest was placed on turbulent mixing layers. The required data for these investigations were generated from four newly developed codes for simulation of time and spatially developing incompressible and compressible mixing layers. Also of interest were the structure of wall bounded turbulent and transitional flows, evaluation of diagnostic techniques for detection of organized motions, energy transfer in isotropic turbulence, optical propagation through turbulent media, and detailed analysis of the interaction of vortical structures.
Deploying Server-side File System Monitoring at NERSC

DOE Office of Scientific and Technical Information (OSTI.GOV)

Uselton, Andrew

2009-05-01

The Franklin Cray XT4 at the NERSC center was equipped with the server-side I/O monitoring infrastructure Cerebro/LMT, which is described here in detail. Insights gained from the data produced include a better understanding of instantaneous data rates during file system testing, file system behavior during regular production time, and long-term average behaviors. Information and insights gleaned from this monitoring support efforts to proactively manage the I/O infrastructure on Franklin. A simple model for I/O transactions is introduced and compared with the 250 million observations sent to the LMT database from August 2008 to February 2009.
Towards a model of surgeons' leadership in the operating room.

PubMed

Henrickson Parker, Sarah; Yule, Steven; Flin, Rhona; McKinley, Aileen

2011-07-01

There is widespread recognition that leadership skills are essential for effective performance in the workplace, but the evidence detailing effective leadership behaviours for surgeons during operations is unclear. Boolean searches of four on-line databases and detailed hand search of relevant references were conducted. A four stage screening process was adopted stipulating that articles presented empirical data on surgeons' intraoperative leadership behaviours. Ten relevant articles were identified and organised by method of investigation into (i) observation, (ii) questionnaire and (iii) interview studies. This review summarises the limited literature on surgeons' intraoperative leadership, and proposes a preliminary theoretically based structure for intraoperative leadership behaviours. This structure comprises seven categories with corresponding leadership components and covers two overarching themes related to task- and team-focus. Selected leadership theories which may be applicable to the operating room environment are also discussed. Further research is required to determine effective intraoperative leadership behaviours for safe surgical practice.
A review of drug-induced liver injury databases.

PubMed

Luo, Guangwen; Shen, Yiting; Yang, Lizhu; Lu, Aiping; Xiang, Zheng

2017-09-01

Drug-induced liver injuries have been a major focus of current research in drug development, and are also one of the major reasons for the failure and withdrawal of drugs in development. Drug-induced liver injuries have been systematically recorded in many public databases, which have become valuable resources in this field. In this study, we provide an overview of these databases, including the liver injury-specific databases LiverTox, LTKB, Open TG-GATEs, LTMap and Hepatox, and the general databases, T3DB, DrugBank, DITOP, DART, CTD and HSDB. The features and limitations of these databases are summarized and discussed in detail. Apart from their powerful functions, we believe that these databases can be improved in several ways: by providing the data about the molecular targets involved in liver toxicity, by incorporating information regarding liver injuries caused by drug interactions, and by regularly updating the data.
Multiple electron processes of He and Ne by proton impact

NASA Astrophysics Data System (ADS)

Terekhin, Pavel Nikolaevich; Montenegro, Pablo; Quinto, Michele; Monti, Juan; Fojon, Omar; Rivarola, Roberto

2016-05-01

A detailed investigation of multiple electron processes (single and multiple ionization, single capture, transfer-ionization) of He and Ne is presented for proton impact at intermediate and high collision energies. Exclusive absolute cross sections for these processes have been obtained by calculation of transition probabilities in the independent electron and independent event models as a function of impact parameter in the framework of the continuum distorted wave-eikonal initial state theory. A binomial analysis is employed to calculate exclusive probabilities. The comparison with available theoretical and experimental results shows that exclusive probabilities are needed for a reliable description of the experimental data. The developed approach can be used for obtaining the input database for modeling multiple electron processes of charged particles passing through the matter.
Active and Passive Radiative Transfer Modeling with Preferentially-Aligned Particles

NASA Technical Reports Server (NTRS)

Adams, Ian Stuart

2017-01-01

The fluid dynamics of falling hydrometeors often results in preferential orientations that can affect both the intensity and polarization of electromagnetic radiation. In order to properly interpret remote sensing observations of ice and snow, such alignments should be considered when constructing databases of scattering particles; however, the inclusion of aligned particles increases the complexity of the scattering data. To demonstrate the use of scattering properties of preferentially-aligned particles, millimeter-wave brightness temperatures and radar observables, including reflectivity and linear depolarization ratio, are modeled using the Atmospheric Radiative Transfer Simulator (ARTS). The necessary scattering parameters for vector radiative transfer, particularly with respect to ARTS, are reviewed, and the exploitation of particle symmetries, as well as scattering reciprocity relationships, are detailed.
Embracing the Open-Source Movement for the Management of Spatial Data: A Case Study of African Trypanosomiasis in Kenya

PubMed Central

Langley, Shaun A.; Messina, Joseph P.

2011-01-01

The past decade has seen an explosion in the availability of spatial data not only for researchers, but the public alike. As the quantity of data increases, the ability to effectively navigate and understand the data becomes more challenging. Here we detail a conceptual model for a spatially explicit database management system that addresses the issues raised with the growing data management problem. We demonstrate utility with a case study in disease ecology: to develop a multi-scale predictive model of African Trypanosomiasis in Kenya. International collaborations and varying technical expertise necessitate a modular open-source software solution. Finally, we address three recurring problems with data management: scalability, reliability, and security. PMID:21686072
Embracing the Open-Source Movement for the Management of Spatial Data: A Case Study of African Trypanosomiasis in Kenya.

PubMed

Langley, Shaun A; Messina, Joseph P

2011-01-01

The past decade has seen an explosion in the availability of spatial data not only for researchers, but the public alike. As the quantity of data increases, the ability to effectively navigate and understand the data becomes more challenging. Here we detail a conceptual model for a spatially explicit database management system that addresses the issues raised with the growing data management problem. We demonstrate utility with a case study in disease ecology: to develop a multi-scale predictive model of African Trypanosomiasis in Kenya. International collaborations and varying technical expertise necessitate a modular open-source software solution. Finally, we address three recurring problems with data management: scalability, reliability, and security.
Computing diffuse fraction of global horizontal solar radiation: A model comparison.

PubMed

Dervishi, Sokol; Mahdavi, Ardeshir

2012-06-01

For simulation-based prediction of buildings' energy use or expected gains from building-integrated solar energy systems, information on both direct and diffuse component of solar radiation is necessary. Available measured data are, however, typically restricted to global horizontal irradiance. There have been thus many efforts in the past to develop algorithms for the derivation of the diffuse fraction of solar irradiance. In this context, the present paper compares eight models for estimating diffuse fraction of irradiance based on a database of measured irradiance from Vienna, Austria. These models generally involve mathematical formulations with multiple coefficients whose values are typically valid for a specific location. Subsequent to a first comparison of these eight models, three better performing models were selected for a more detailed analysis. Thereby, the coefficients of the models were modified to account for Vienna data. The results suggest that some models can provide relatively reliable estimations of the diffuse fractions of the global irradiance. The calibration procedure could only slightly improve the models' performance.
Logical-rule models of classification response times: a synthesis of mental-architecture, random-walk, and decision-bound approaches.

PubMed

Fific, Mario; Little, Daniel R; Nosofsky, Robert M

2010-04-01

We formalize and provide tests of a set of logical-rule models for predicting perceptual classification response times (RTs) and choice probabilities. The models are developed by synthesizing mental-architecture, random-walk, and decision-bound approaches. According to the models, people make independent decisions about the locations of stimuli along a set of component dimensions. Those independent decisions are then combined via logical rules to determine the overall categorization response. The time course of the independent decisions is modeled via random-walk processes operating along individual dimensions. Alternative mental architectures are used as mechanisms for combining the independent decisions to implement the logical rules. We derive fundamental qualitative contrasts for distinguishing among the predictions of the rule models and major alternative models of classification RT. We also use the models to predict detailed RT-distribution data associated with individual stimuli in tasks of speeded perceptual classification. PsycINFO Database Record (c) 2010 APA, all rights reserved.
Searching the ASRS Database Using QUORUM Keyword Search, Phrase Search, Phrase Generation, and Phrase Discovery

NASA Technical Reports Server (NTRS)

McGreevy, Michael W.; Connors, Mary M. (Technical Monitor)

2001-01-01

To support Search Requests and Quick Responses at the Aviation Safety Reporting System (ASRS), four new QUORUM methods have been developed: keyword search, phrase search, phrase generation, and phrase discovery. These methods build upon the core QUORUM methods of text analysis, modeling, and relevance-ranking. QUORUM keyword search retrieves ASRS incident narratives that contain one or more user-specified keywords in typical or selected contexts, and ranks the narratives on their relevance to the keywords in context. QUORUM phrase search retrieves narratives that contain one or more user-specified phrases, and ranks the narratives on their relevance to the phrases. QUORUM phrase generation produces a list of phrases from the ASRS database that contain a user-specified word or phrase. QUORUM phrase discovery finds phrases that are related to topics of interest. Phrase generation and phrase discovery are particularly useful for finding query phrases for input to QUORUM phrase search. The presentation of the new QUORUM methods includes: a brief review of the underlying core QUORUM methods; an overview of the new methods; numerous, concrete examples of ASRS database searches using the new methods; discussion of related methods; and, in the appendices, detailed descriptions of the new methods.
Vision based flight procedure stereo display system

NASA Astrophysics Data System (ADS)

Shen, Xiaoyun; Wan, Di; Ma, Lan; He, Yuncheng

2008-03-01

A virtual reality flight procedure vision system is introduced in this paper. The digital flight map database is established based on the Geographic Information System (GIS) and high definitions satellite remote sensing photos. The flight approaching area database is established through computer 3D modeling system and GIS. The area texture is generated from the remote sensing photos and aerial photographs in various level of detail. According to the flight approaching procedure, the flight navigation information is linked to the database. The flight approaching area vision can be dynamic displayed according to the designed flight procedure. The flight approaching area images are rendered in 2 channels, one for left eye images and the others for right eye images. Through the polarized stereoscopic projection system, the pilots and aircrew can get the vivid 3D vision of the flight destination approaching area. Take the use of this system in pilots preflight preparation procedure, the aircrew can get more vivid information along the flight destination approaching area. This system can improve the aviator's self-confidence before he carries out the flight mission, accordingly, the flight safety is improved. This system is also useful in validate the visual flight procedure design, and it helps to the flight procedure design.
MIPS: analysis and annotation of genome information in 2007

PubMed Central

Mewes, H. W.; Dietmann, S.; Frishman, D.; Gregory, R.; Mannhaupt, G.; Mayer, K. F. X.; Münsterkötter, M.; Ruepp, A.; Spannagl, M.; Stümpflen, V.; Rattei, T.

2008-01-01

The Munich Information Center for Protein Sequences (MIPS-GSF, Neuherberg, Germany) combines automatic processing of large amounts of sequences with manual annotation of selected model genomes. Due to the massive growth of the available data, the depth of annotation varies widely between independent databases. Also, the criteria for the transfer of information from known to orthologous sequences are diverse. To cope with the task of global in-depth genome annotation has become unfeasible. Therefore, our efforts are dedicated to three levels of annotation: (i) the curation of selected genomes, in particular from fungal and plant taxa (e.g. CYGD, MNCDB, MatDB), (ii) the comprehensive, consistent, automatic annotation employing exhaustive methods for the computation of sequence similarities and sequence-related attributes as well as the classification of individual sequences (SIMAP, PEDANT and FunCat) and (iii) the compilation of manually curated databases for protein interactions based on scrutinized information from the literature to serve as an accepted set of reliable annotated interaction data (MPACT, MPPI, CORUM). All databases and tools described as well as the detailed descriptions of our projects can be accessed through the MIPS web server (http://mips.gsf.de). PMID:18158298
MIPS: analysis and annotation of genome information in 2007.

PubMed

Mewes, H W; Dietmann, S; Frishman, D; Gregory, R; Mannhaupt, G; Mayer, K F X; Münsterkötter, M; Ruepp, A; Spannagl, M; Stümpflen, V; Rattei, T

2008-01-01

The Munich Information Center for Protein Sequences (MIPS-GSF, Neuherberg, Germany) combines automatic processing of large amounts of sequences with manual annotation of selected model genomes. Due to the massive growth of the available data, the depth of annotation varies widely between independent databases. Also, the criteria for the transfer of information from known to orthologous sequences are diverse. To cope with the task of global in-depth genome annotation has become unfeasible. Therefore, our efforts are dedicated to three levels of annotation: (i) the curation of selected genomes, in particular from fungal and plant taxa (e.g. CYGD, MNCDB, MatDB), (ii) the comprehensive, consistent, automatic annotation employing exhaustive methods for the computation of sequence similarities and sequence-related attributes as well as the classification of individual sequences (SIMAP, PEDANT and FunCat) and (iii) the compilation of manually curated databases for protein interactions based on scrutinized information from the literature to serve as an accepted set of reliable annotated interaction data (MPACT, MPPI, CORUM). All databases and tools described as well as the detailed descriptions of our projects can be accessed through the MIPS web server (http://mips.gsf.de).
Use of modeling to identify vulnerabilities to human error in laparoscopy.

PubMed

Funk, Kenneth H; Bauer, James D; Doolen, Toni L; Telasha, David; Nicolalde, R Javier; Reeber, Miriam; Yodpijit, Nantakrit; Long, Myra

2010-01-01

This article describes an exercise to investigate the utility of modeling and human factors analysis in understanding surgical processes and their vulnerabilities to medical error. A formal method to identify error vulnerabilities was developed and applied to a test case of Veress needle insertion during closed laparoscopy. A team of 2 surgeons, a medical assistant, and 3 engineers used hierarchical task analysis and Integrated DEFinition language 0 (IDEF0) modeling to create rich models of the processes used in initial port creation. Using terminology from a standardized human performance database, detailed task descriptions were written for 4 tasks executed in the process of inserting the Veress needle. Key terms from the descriptions were used to extract from the database generic errors that could occur. Task descriptions with potential errors were translated back into surgical terminology. Referring to the process models and task descriptions, the team used a modified failure modes and effects analysis (FMEA) to consider each potential error for its probability of occurrence, its consequences if it should occur and be undetected, and its probability of detection. The resulting likely and consequential errors were prioritized for intervention. A literature-based validation study confirmed the significance of the top error vulnerabilities identified using the method. Ongoing work includes design and evaluation of procedures to correct the identified vulnerabilities and improvements to the modeling and vulnerability identification methods. Copyright 2010 AAGL. Published by Elsevier Inc. All rights reserved.
Interleukins and their signaling pathways in the Reactome biological pathway database.

PubMed

Jupe, Steve; Ray, Keith; Roca, Corina Duenas; Varusai, Thawfeek; Shamovsky, Veronica; Stein, Lincoln; D'Eustachio, Peter; Hermjakob, Henning

2018-04-01

There is a wealth of biological pathway information available in the scientific literature, but it is spread across many thousands of publications. Alongside publications that contain definitive experimental discoveries are many others that have been dismissed as spurious, found to be irreproducible, or are contradicted by later results and consequently now considered controversial. Many descriptions and images of pathways are incomplete stylized representations that assume the reader is an expert and familiar with the established details of the process, which are consequently not fully explained. Pathway representations in publications frequently do not represent a complete, detailed, and unambiguous description of the molecules involved; their precise posttranslational state; or a full account of the molecular events they undergo while participating in a process. Although this might be sufficient to be interpreted by an expert reader, the lack of detail makes such pathways less useful and difficult to understand for anyone unfamiliar with the area and of limited use as the basis for computational models. Reactome was established as a freely accessible knowledge base of human biological pathways. It is manually populated with interconnected molecular events that fully detail the molecular participants linked to published experimental data and background material by using a formal and open data structure that facilitates computational reuse. These data are accessible on a Web site in the form of pathway diagrams that have descriptive summaries and annotations and as downloadable data sets in several formats that can be reused with other computational tools. The entire database and all supporting software can be downloaded and reused under a Creative Commons license. Pathways are authored by expert biologists who work with Reactome curators and editorial staff to represent the consensus in the field. Pathways are represented as interactive diagrams that include as much molecular detail as possible and are linked to literature citations that contain supporting experimental details. All newly created events undergo a peer-review process before they are added to the database and made available on the associated Web site. New content is added quarterly. The 63rd release of Reactome in December 2017 contains 10,996 human proteins participating in 11,426 events in 2,179 pathways. In addition, analytic tools allow data set submission for the identification and visualization of pathway enrichment and representation of expression profiles as an overlay on Reactome pathways. Protein-protein and compound-protein interactions from several sources, including custom user data sets, can be added to extend pathways. Pathway diagrams and analytic result displays can be downloaded as editable images, human-readable reports, and files in several standard formats that are suitable for computational reuse. Reactome content is available programmatically through a REpresentational State Transfer (REST)-based content service and as a Neo4J graph database. Signaling pathways for IL-1 to IL-38 are hierarchically classified within the pathway "signaling by interleukins." The classification used is largely derived from Akdis et al. The addition to Reactome of a complete set of the known human interleukins, their receptors, and established signaling pathways linked to annotations of relevant aspects of immune function provides a significant computationally accessible resource of information about this important family. This information can be extended easily as new discoveries become accepted as the consensus in the field. A key aim for the future is to increase coverage of gene expression changes induced by interleukin signaling. Copyright © 2018 The Authors. Published by Elsevier Inc. All rights reserved.
Specification of parameters for development of a spatial database for drought monitoring and famine early warning in the African Sahel

NASA Technical Reports Server (NTRS)

Rochon, Gilbert L.

1989-01-01

Parameters were described for spatial database to facilitate drought monitoring and famine early warning in the African Sahel. The proposed system, referred to as the African Drought and Famine Information System (ADFIS) is ultimately recommended for implementation with the NASA/FEMA Spatial Analysis and Modeling System (SAMS), a GIS/Dymanic Modeling software package, currently under development. SAMS is derived from FEMA'S Integration Emergency Management Information System (IEMIS) and the Pacific Northwest Laborotory's/Engineering Topographic Laboratory's Airland Battlefield Environment (ALBE) GIS. SAMS is primarily intended for disaster planning and resource management applications with the developing countries. Sources of data for the system would include the Developing Economics Branch of the U.S. Dept. of Agriculture, the World Bank, Tulane University School of Public Health and Tropical Medicine's Famine Early Warning Systems (FEWS) Project, the USAID's Foreign Disaster Assistance Section, the World Resources Institute, the World Meterological Institute, the USGS, the UNFAO, UNICEF, and the United Nations Disaster Relief Organization (UNDRO). Satellite imagery would include decadal AVHRR imagery and Normalized Difference Vegetation Index (NDVI) values from 1981 to the present for the African continent and selected Landsat scenes for the Sudan pilot study. The system is initially conceived for the MicroVAX 2/GPX, running VMS. To facilitate comparative analysis, a global time-series database (1950 to 1987) is included for a basic set of 125 socio-economic variables per country per year. A more detailed database for the Sahelian countries includes soil type, water resources, agricultural production, agricultural import and export, food aid, and consumption. A pilot dataset for the Sudan with over 2,500 variables from the World Bank's ANDREX system, also includes epidemiological data on incidence of kwashiorkor, marasmus, other nutritional deficiencies, and synergistically-related infectious diseases.
Large-Scale 1:1 Computing Initiatives: An Open Access Database

ERIC Educational Resources Information Center

Richardson, Jayson W.; McLeod, Scott; Flora, Kevin; Sauers, Nick J.; Kannan, Sathiamoorthy; Sincar, Mehmet

2013-01-01

This article details the spread and scope of large-scale 1:1 computing initiatives around the world. What follows is a review of the existing literature around 1:1 programs followed by a description of the large-scale 1:1 database. Main findings include: 1) the XO and the Classmate PC dominate large-scale 1:1 initiatives; 2) if professional…

A design for the geoinformatics system

NASA Astrophysics Data System (ADS)

Allison, M. L.

2002-12-01

Informatics integrates and applies information technologies with scientific and technical disciplines. A geoinformatics system targets the spatially based sciences. The system is not a master database, but will collect pertinent information from disparate databases distributed around the world. Seamless interoperability of databases promises quantum leaps in productivity not only for scientific researchers but also for many areas of society including business and government. The system will incorporate: acquisition of analog and digital legacy data; efficient information and data retrieval mechanisms (via data mining and web services); accessibility to and application of visualization, analysis, and modeling capabilities; online workspace, software, and tutorials; GIS; integration with online scientific journal aggregates and digital libraries; access to real time data collection and dissemination; user-defined automatic notification and quality control filtering for selection of new resources; and application to field techniques such as mapping. In practical terms, such a system will provide the ability to gather data over the Web from a variety of distributed sources, regardless of computer operating systems, database formats, and servers. Search engines will gather data about any geographic location, above, on, or below ground, covering any geologic time, and at any scale or detail. A distributed network of digital geolibraries can archive permanent copies of databases at risk of being discontinued and those that continue to be maintained by the data authors. The geoinformatics system will generate results from widely distributed sources to function as a dynamic data network. Instead of posting a variety of pre-made tables, charts, or maps based on static databases, the interactive dynamic system creates these products on the fly, each time an inquiry is made, using the latest information in the appropriate databases. Thus, in the dynamic system, a map generated today may differ from one created yesterday and one to be created tomorrow, because the databases used to make it are constantly (and sometimes automatically) being updated.
Seasonal evolution of soil and plant parameters on the agricultural Gebesee test site: a database for the set-up and validation of EO-LDAS and satellite-aided retrieval models

NASA Astrophysics Data System (ADS)

Truckenbrodt, Sina C.; Schmullius, Christiane C.

2018-03-01

Ground reference data are a prerequisite for the calibration, update, and validation of retrieval models facilitating the monitoring of land parameters based on Earth Observation data. Here, we describe the acquisition of a comprehensive ground reference database which was created to test and validate the recently developed Earth Observation Land Data Assimilation System (EO-LDAS) and products derived from remote sensing observations in the visible and infrared range. In situ data were collected for seven crop types (winter barley, winter wheat, spring wheat, durum, winter rape, potato, and sugar beet) cultivated on the agricultural Gebesee test site, central Germany, in 2013 and 2014. The database contains information on hyperspectral surface reflectance factors, the evolution of biophysical and biochemical plant parameters, phenology, surface conditions, atmospheric states, and a set of ground control points. Ground reference data were gathered at an approximately weekly resolution and on different spatial scales to investigate variations within and between acreages. In situ data collected less than 1 day apart from satellite acquisitions (RapidEye, SPOT 5, Landsat-7 and -8) with a cloud coverage ≤ 25 % are available for 10 and 15 days in 2013 and 2014, respectively. The measurements show that the investigated growing seasons were characterized by distinct meteorological conditions causing interannual variations in the parameter evolution. Here, the experimental design of the field campaigns, and methods employed in the determination of all parameters, are described in detail. Insights into the database are provided and potential fields of application are discussed. The data will contribute to a further development of crop monitoring methods based on remote sensing techniques. The database is freely available at PANGAEA (https://doi.org/10.1594/PANGAEA.874251).
Application of 3D Spatio-Temporal Data Modeling, Management, and Analysis in DB4GEO

NASA Astrophysics Data System (ADS)

Kuper, P. V.; Breunig, M.; Al-Doori, M.; Thomsen, A.

2016-10-01

Many of todaýs world wide challenges such as climate change, water supply and transport systems in cities or movements of crowds need spatio-temporal data to be examined in detail. Thus the number of examinations in 3D space dealing with geospatial objects moving in space and time or even changing their shapes in time will rapidly increase in the future. Prominent spatio-temporal applications are subsurface reservoir modeling, water supply after seawater desalination and the development of transport systems in mega cities. All of these applications generate large spatio-temporal data sets. However, the modeling, management and analysis of 3D geo-objects with changing shape and attributes in time still is a challenge for geospatial database architectures. In this article we describe the application of concepts for the modeling, management and analysis of 2.5D and 3D spatial plus 1D temporal objects implemented in DB4GeO, our service-oriented geospatial database architecture. An example application with spatio-temporal data of a landfill, near the city of Osnabrück in Germany demonstrates the usage of the concepts. Finally, an outlook on our future research focusing on new applications with big data analysis in three spatial plus one temporal dimension in the United Arab Emirates, especially the Dubai area, is given.
A Dynamic Integration Method for Borderland Database using OSM data

NASA Astrophysics Data System (ADS)

Zhou, X.-G.; Jiang, Y.; Zhou, K.-X.; Zeng, L.

2013-11-01

Spatial data is the fundamental of borderland analysis of the geography, natural resources, demography, politics, economy, and culture. As the spatial region used in borderland researching usually covers several neighboring countries' borderland regions, the data is difficult to achieve by one research institution or government. VGI has been proven to be a very successful means of acquiring timely and detailed global spatial data at very low cost. Therefore VGI will be one reasonable source of borderland spatial data. OpenStreetMap (OSM) has been known as the most successful VGI resource. But OSM data model is far different from the traditional authoritative geographic information. Thus the OSM data needs to be converted to the scientist customized data model. With the real world changing fast, the converted data needs to be updated. Therefore, a dynamic integration method for borderland data is presented in this paper. In this method, a machine study mechanism is used to convert the OSM data model to the user data model; a method used to select the changed objects in the researching area over a given period from OSM whole world daily diff file is presented, the change-only information file with designed form is produced automatically. Based on the rules and algorithms mentioned above, we enabled the automatic (or semiautomatic) integration and updating of the borderland database by programming. The developed system was intensively tested.
FJET Database Project: Extract, Transform, and Load

NASA Technical Reports Server (NTRS)

Samms, Kevin O.

2015-01-01

The Data Mining & Knowledge Management team at Kennedy Space Center is providing data management services to the Frangible Joint Empirical Test (FJET) project at Langley Research Center (LARC). FJET is a project under the NASA Engineering and Safety Center (NESC). The purpose of FJET is to conduct an assessment of mild detonating fuse (MDF) frangible joints (FJs) for human spacecraft separation tasks in support of the NASA Commercial Crew Program. The Data Mining & Knowledge Management team has been tasked with creating and managing a database for the efficient storage and retrieval of FJET test data. This paper details the Extract, Transform, and Load (ETL) process as it is related to gathering FJET test data into a Microsoft SQL relational database, and making that data available to the data users. Lessons learned, procedures implemented, and programming code samples are discussed to help detail the learning experienced as the Data Mining & Knowledge Management team adapted to changing requirements and new technology while maintaining flexibility of design in various aspects of the data management project.
[Relational database for urinary stone ambulatory consultation. Assessment of initial outcomes].

PubMed

Sáenz Medina, J; Páez Borda, A; Crespo Martinez, L; Gómez Dos Santos, V; Barrado, C; Durán Poveda, M

2010-05-01

To create a relational database for monitoring lithiasic patients. We describe the architectural details and the initial results of the statistical analysis. Microsoft Access 2002 was used as template. Four different tables were constructed to gather demographic data (table 1), clinical and laboratory findings (table 2), stone features (table 3) and therapeutic approach (table 4). For a reliability analysis of the database the number of correctly stored data was gathered. To evaluate the performance of the database, a prospective analysis was conducted, from May 2004 to August 2009, on 171 stone free patients after treatment (EWSL, surgery or medical) from a total of 511 patients stored in the database. Lithiasic status (stone free or stone relapse) was used as primary end point, while demographic factors (age, gender), lithiasic history, upper urinary tract alterations and characteristics of the stone (side, location, composition and size) were considered as predictive factors. An univariate analysis was conducted initially by chi square test and supplemented by Kaplan Meier estimates for time to stone recurrence. A multiple Cox proportional hazards regression model was generated to jointly assess the prognostic value of the demographic factors and the predictive value of stones characteristics. For the reliability analysis 22,084 data were available corresponding to 702 consultations on 511 patients. Analysis of data showed a recurrence rate of 85.4% (146/171, median time to recurrence 608 days, range 70-1758). In the univariate and multivariate analysis, none of the factors under consideration had a significant effect on recurrence rate (p=ns). The relational database is useful for monitoring patients with urolithiasis. It allows easy control and update, as well as data storage for later use. The analysis conducted for its evaluation showed no influence of demographic factors and stone features on stone recurrence.
A scalable database model for multiparametric time series: a volcano observatory case study

NASA Astrophysics Data System (ADS)

Montalto, Placido; Aliotta, Marco; Cassisi, Carmelo; Prestifilippo, Michele; Cannata, Andrea

2014-05-01

The variables collected by a sensor network constitute a heterogeneous data source that needs to be properly organized in order to be used in research and geophysical monitoring. With the time series term we refer to a set of observations of a given phenomenon acquired sequentially in time. When the time intervals are equally spaced one speaks of period or sampling frequency. Our work describes in detail a possible methodology for storage and management of time series using a specific data structure. We designed a framework, hereinafter called TSDSystem (Time Series Database System), in order to acquire time series from different data sources and standardize them within a relational database. The operation of standardization provides the ability to perform operations, such as query and visualization, of many measures synchronizing them using a common time scale. The proposed architecture follows a multiple layer paradigm (Loaders layer, Database layer and Business Logic layer). Each layer is specialized in performing particular operations for the reorganization and archiving of data from different sources such as ASCII, Excel, ODBC (Open DataBase Connectivity), file accessible from the Internet (web pages, XML). In particular, the loader layer performs a security check of the working status of each running software through an heartbeat system, in order to automate the discovery of acquisition issues and other warning conditions. Although our system has to manage huge amounts of data, performance is guaranteed by using a smart partitioning table strategy, that keeps balanced the percentage of data stored in each database table. TSDSystem also contains modules for the visualization of acquired data, that provide the possibility to query different time series on a specified time range, or follow the realtime signal acquisition, according to a data access policy from the users.
Application of an OCT data-based mathematical model of the foveal pit in Parkinson disease.

PubMed

Ding, Yin; Spund, Brian; Glazman, Sofya; Shrier, Eric M; Miri, Shahnaz; Selesnick, Ivan; Bodis-Wollner, Ivan

2014-11-01

Spectral-domain Optical coherence tomography (OCT) has shown remarkable utility in the study of retinal disease and has helped to characterize the fovea in Parkinson disease (PD) patients. We developed a detailed mathematical model based on raw OCT data to allow differentiation of foveae of PD patients from healthy controls. Of the various models we tested, a difference of a Gaussian and a polynomial was found to have "the best fit". Decision was based on mathematical evaluation of the fit of the model to the data of 45 control eyes versus 50 PD eyes. We compared the model parameters in the two groups using receiver-operating characteristics (ROC). A single parameter discriminated 70 % of PD eyes from controls, while using seven of the eight parameters of the model allowed 76 % to be discriminated. The future clinical utility of mathematical modeling in study of diffuse neurodegenerative conditions that also affect the fovea is discussed.
DDD: Dynamic Database for Diatomics

NASA Technical Reports Server (NTRS)

Schwenke, David

2004-01-01

We have developed as web-based database containing spectra of diatomic moiecuies. All data is computed from first principles, and if a user requests data for a molecule/ion that is not in the database, new calculations are automatically carried out on that species. Rotational, vibrational, and electronic transitions are included. Different levels of accuracy can be selected from qualitatively correct to the best calculations that can be carried out. The user can view and modify spectroscopic constants, view potential energy curves, download detailed high temperature linelists, or view synthetic spectra.
Transport of Light Ions in Matter

NASA Technical Reports Server (NTRS)

Wilson, J. W.; Cucinotta, F. A.; Tai, H.; Shinn, J. L.; Chun, S. Y.; Tripathi, R. K.; Sihver, L.

1998-01-01

A recent set of light ion experiments are analyzed using the Green's function method of solving the Boltzmann equation for ions of high charge and energy (the GRNTRN transport code) and the NUCFRG2 fragmentation database generator code. Although the NUCFRG2 code reasonably represents the fragmentation of heavy ions, the effects of light ion fragmentation requires a more detailed nuclear model including shell structure and short range correlations appearing as tightly bound clusters in the light ion nucleus. The most recent NTJCFRG2 code is augmented with a quasielastic alpha knockout model and semiempirical adjustments (up to 30 percent in charge removal) in the fragmentation process allowing reasonable agreement with the experiments to be obtained. A final resolution of the appropriate cross sections must await the full development of a coupled channel reaction model in which shell structure and clustering can be accurately evaluated.
DOE Office of Scientific and Technical Information (OSTI.GOV)

Barnette, Daniel W.

eCo-PylotDB, written completely in Python, provides a script that parses incoming emails and prepares extracted data for submission to a database table. The script extracts the database server, the database table, the server password, and the server username all from the email address to which the email is sent. The database table is specified on the Subject line. Any text in the body of the email is extracted as user comments for the database table. Attached files are extracted as data files with each file submitted to a specified table field but in separate rows of the targeted database table.more » Other information such as sender, date, time, and machine from which the email was sent is extracted and submitted to the database table as well. An email is sent back to the user specifying whether the data from the initial email was accepted or rejected by the database server. If rejected, the return email includes details as to why.« less
A survey of commercial object-oriented database management systems

NASA Technical Reports Server (NTRS)

Atkins, John

1992-01-01

The object-oriented data model is the culmination of over thirty years of database research. Initially, database research focused on the need to provide information in a consistent and efficient manner to the business community. Early data models such as the hierarchical model and the network model met the goal of consistent and efficient access to data and were substantial improvements over simple file mechanisms for storing and accessing data. However, these models required highly skilled programmers to provide access to the data. Consequently, in the early 70's E.F. Codd, an IBM research computer scientists, proposed a new data model based on the simple mathematical notion of the relation. This model is known as the Relational Model. In the relational model, data is represented in flat tables (or relations) which have no physical or internal links between them. The simplicity of this model fostered the development of powerful but relatively simple query languages that now made data directly accessible to the general database user. Except for large, multi-user database systems, a database professional was in general no longer necessary. Database professionals found that traditional data in the form of character data, dates, and numeric data were easily represented and managed via the relational model. Commercial relational database management systems proliferated and performance of relational databases improved dramatically. However, there was a growing community of potential database users whose needs were not met by the relational model. These users needed to store data with data types not available in the relational model and who required a far richer modelling environment than that provided by the relational model. Indeed, the complexity of the objects to be represented in the model mandated a new approach to database technology. The Object-Oriented Model was the result.
Intrinsic Radiation Source Generation with the ISC Package: Data Comparisons and Benchmarking

DOE Office of Scientific and Technical Information (OSTI.GOV)

Solomon, Clell J. Jr.

The characterization of radioactive emissions from unstable isotopes (intrinsic radiation) is necessary for shielding and radiological-dose calculations from radioactive materials. While most radiation transport codes, e.g., MCNP [X-5 Monte Carlo Team, 2003], provide the capability to input user prescribed source definitions, such as radioactive emissions, they do not provide the capability to calculate the correct radioactive-source definition given the material compositions. Special modifications to MCNP have been developed in the past to allow the user to specify an intrinsic source, but these modification have not been implemented into the primary source base [Estes et al., 1988]. To facilitate the descriptionmore » of the intrinsic radiation source from a material with a specific composition, the Intrinsic Source Constructor library (LIBISC) and MCNP Intrinsic Source Constructor (MISC) utility have been written. The combination of LIBISC and MISC will be herein referred to as the ISC package. LIBISC is a statically linkable C++ library that provides the necessary functionality to construct the intrinsic-radiation source generated by a material. Furthermore, LIBISC provides the ability use different particle-emission databases, radioactive-decay databases, and natural-abundance databases allowing the user flexibility in the specification of the source, if one database is preferred over others. LIBISC also provides functionality for aging materials and producing a thick-target bremsstrahlung photon source approximation from the electron emissions. The MISC utility links to LIBISC and facilitates the description of intrinsic-radiation sources into a format directly usable with the MCNP transport code. Through a series of input keywords and arguments the MISC user can specify the material, age the material if desired, and produce a source description of the radioactive emissions from the material in an MCNP readable format. Further details of using the MISC utility can be obtained from the user guide [Solomon, 2012]. The remainder of this report presents a discussion of the databases available to LIBISC and MISC, a discussion of the models employed by LIBISC, a comparison of the thick-target bremsstrahlung model employed, a benchmark comparison to plutonium and depleted-uranium spheres, and a comparison of the available particle-emission databases.« less
The ANISEED database: digital representation, formalization, and elucidation of a chordate developmental program.

PubMed

Tassy, Olivier; Dauga, Delphine; Daian, Fabrice; Sobral, Daniel; Robin, François; Khoueiry, Pierre; Salgado, David; Fox, Vanessa; Caillol, Danièle; Schiappa, Renaud; Laporte, Baptiste; Rios, Anne; Luxardi, Guillaume; Kusakabe, Takehiro; Joly, Jean-Stéphane; Darras, Sébastien; Christiaen, Lionel; Contensin, Magali; Auger, Hélène; Lamy, Clément; Hudson, Clare; Rothbächer, Ute; Gilchrist, Michael J; Makabe, Kazuhiro W; Hotta, Kohji; Fujiwara, Shigeki; Satoh, Nori; Satou, Yutaka; Lemaire, Patrick

2010-10-01

Developmental biology aims to understand how the dynamics of embryonic shapes and organ functions are encoded in linear DNA molecules. Thanks to recent progress in genomics and imaging technologies, systemic approaches are now used in parallel with small-scale studies to establish links between genomic information and phenotypes, often described at the subcellular level. Current model organism databases, however, do not integrate heterogeneous data sets at different scales into a global view of the developmental program. Here, we present a novel, generic digital system, NISEED, and its implementation, ANISEED, to ascidians, which are invertebrate chordates suitable for developmental systems biology approaches. ANISEED hosts an unprecedented combination of anatomical and molecular data on ascidian development. This includes the first detailed anatomical ontologies for these embryos, and quantitative geometrical descriptions of developing cells obtained from reconstructed three-dimensional (3D) embryos up to the gastrula stages. Fully annotated gene model sets are linked to 30,000 high-resolution spatial gene expression patterns in wild-type and experimentally manipulated conditions and to 528 experimentally validated cis-regulatory regions imported from specialized databases or extracted from 160 literature articles. This highly structured data set can be explored via a Developmental Browser, a Genome Browser, and a 3D Virtual Embryo module. We show how integration of heterogeneous data in ANISEED can provide a system-level understanding of the developmental program through the automatic inference of gene regulatory interactions, the identification of inducing signals, and the discovery and explanation of novel asymmetric divisions.
Development of a model web-based system to support a statewide quality consortium in radiation oncology.

PubMed

Moran, Jean M; Feng, Mary; Benedetti, Lisa A; Marsh, Robin; Griffith, Kent A; Matuszak, Martha M; Hess, Michael; McMullen, Matthew; Fisher, Jennifer H; Nurushev, Teamour; Grubb, Margaret; Gardner, Stephen; Nielsen, Daniel; Jagsi, Reshma; Hayman, James A; Pierce, Lori J

A database in which patient data are compiled allows analytic opportunities for continuous improvements in treatment quality and comparative effectiveness research. We describe the development of a novel, web-based system that supports the collection of complex radiation treatment planning information from centers that use diverse techniques, software, and hardware for radiation oncology care in a statewide quality collaborative, the Michigan Radiation Oncology Quality Consortium (MROQC). The MROQC database seeks to enable assessment of physician- and patient-reported outcomes and quality improvement as a function of treatment planning and delivery techniques for breast and lung cancer patients. We created tools to collect anonymized data based on all plans. The MROQC system representing 24 institutions has been successfully deployed in the state of Michigan. Since 2012, dose-volume histogram and Digital Imaging and Communications in Medicine-radiation therapy plan data and information on simulation, planning, and delivery techniques have been collected. Audits indicated >90% accurate data submission and spurred refinements to data collection methodology. This model web-based system captures detailed, high-quality radiation therapy dosimetry data along with patient- and physician-reported outcomes and clinical data for a radiation therapy collaborative quality initiative. The collaborative nature of the project has been integral to its success. Our methodology can be applied to setting up analogous consortiums and databases. Copyright © 2016 American Society for Radiation Oncology. Published by Elsevier Inc. All rights reserved.
Assessment on EXPERT Descent and Landing System Aerodynamics

NASA Astrophysics Data System (ADS)

Wong, H.; Muylaert, J.; Northey, D.; Riley, D.

2009-01-01

EXPERT is a re-entry vehicle designed for validation of aero-thermodynamic models, numerical schemes in Computational Fluid Dynamics codes and test facilities for measuring flight data under an Earth re-entry environment. This paper addresses the design for the descent and landing sequence for EXPERT. It includes the descent sequence, the choice of drogue and main parachutes, and the parachute deployment condition, which can be supersonic or subsonic. The analysis is based mainly on an engineering tool, PASDA, together with some hand calculations for parachute sizing and design. The tool consists of a detailed 6-DoF simulation performed with the aerodynamics database of the vehicle, an empirical wakes model and the International Standard Atmosphere database. The aerodynamics database for the vehicle is generated by DNW experimental data and CFD codes within the framework of an ESA contract to CIRA. The analysis will be presented in terms of altitude, velocity, accelerations, angle-of- attack, pitch angle and angle of rigging line. Discussion on the advantages and disadvantages of each parachute deployment condition is included in addition to some comparison with the available data based on a Monte-Carlo method from a Russian company, FSUE NIIPS. Sensitivity on wind speed to the performance of EXPERT is shown to be strong. Supersonic deployment of drogue shows a better performance in stability at the expense of a larger G-load than those from the subsonic deployment of drogue. Further optimization on the parachute design is necessary in order to fulfill all the EXPERT specifications.
The ANISEED database: Digital representation, formalization, and elucidation of a chordate developmental program

PubMed Central

Tassy, Olivier; Dauga, Delphine; Daian, Fabrice; Sobral, Daniel; Robin, François; Khoueiry, Pierre; Salgado, David; Fox, Vanessa; Caillol, Danièle; Schiappa, Renaud; Laporte, Baptiste; Rios, Anne; Luxardi, Guillaume; Kusakabe, Takehiro; Joly, Jean-Stéphane; Darras, Sébastien; Christiaen, Lionel; Contensin, Magali; Auger, Hélène; Lamy, Clément; Hudson, Clare; Rothbächer, Ute; Gilchrist, Michael J.; Makabe, Kazuhiro W.; Hotta, Kohji; Fujiwara, Shigeki; Satoh, Nori; Satou, Yutaka; Lemaire, Patrick

2010-01-01

Developmental biology aims to understand how the dynamics of embryonic shapes and organ functions are encoded in linear DNA molecules. Thanks to recent progress in genomics and imaging technologies, systemic approaches are now used in parallel with small-scale studies to establish links between genomic information and phenotypes, often described at the subcellular level. Current model organism databases, however, do not integrate heterogeneous data sets at different scales into a global view of the developmental program. Here, we present a novel, generic digital system, NISEED, and its implementation, ANISEED, to ascidians, which are invertebrate chordates suitable for developmental systems biology approaches. ANISEED hosts an unprecedented combination of anatomical and molecular data on ascidian development. This includes the first detailed anatomical ontologies for these embryos, and quantitative geometrical descriptions of developing cells obtained from reconstructed three-dimensional (3D) embryos up to the gastrula stages. Fully annotated gene model sets are linked to 30,000 high-resolution spatial gene expression patterns in wild-type and experimentally manipulated conditions and to 528 experimentally validated cis-regulatory regions imported from specialized databases or extracted from 160 literature articles. This highly structured data set can be explored via a Developmental Browser, a Genome Browser, and a 3D Virtual Embryo module. We show how integration of heterogeneous data in ANISEED can provide a system-level understanding of the developmental program through the automatic inference of gene regulatory interactions, the identification of inducing signals, and the discovery and explanation of novel asymmetric divisions. PMID:20647237
The integration of palaeogeography and tectonics in refining plate tectonic models: an example from SE Asia

NASA Astrophysics Data System (ADS)

Masterton, S. M.; Markwick, P.; Bailiff, R.; Campanile, D.; Edgecombe, E.; Eue, D.; Galsworthy, A.; Wilson, K.

2012-04-01

Our understanding of lithospheric evolution and global plate motions throughout the Earth's history is based largely upon detailed knowledge of plate boundary structures, inferences about tectonic regimes, ocean isochrons and palaeomagnetic data. Most currently available plate models are either regionally restricted or do not consider palaeogeographies in their construction. Here, we present an integrated methodology in which derived hypotheses have been further refined using global and regional palaeogeographic, palaeotopological and palaeobathymetric maps. Iteration between our self-consistent and structurally constrained global plate model and palaeogeographic interpretations which are built on these reconstructions, allows for greater testing and refinement of results. Our initial structural and tectonic interpretations are based largely on analysis of our extensive global database of gravity and magnetic potential field data, and are further constrained by seismic, SRTM and Landsat data. This has been used as the basis for detailed interpretations that have allowed us to compile a new global map and database of structures, crustal types, plate boundaries and basin definitions. Our structural database is used in the identification of major tectonic terranes and their relative motions, from which we have developed our global plate model. It is subject to an ongoing process of regional evaluation and revisions in an effort to incorporate and reflect new tectonic and geologic interpretations. A major element of this programme is the extension of our existing plate model (GETECH Global Plate Model V1) back to the Neoproterozic. Our plate model forms the critical framework upon which palaeogeographic and palaeotopographic reconstructions have been made for every time stage in the Cretaceous and Cenozoic. Generating palaeogeographies involves integration of a variety of data, such as regional geology, palaeoclimate analyses, lithology, sea-level estimates, thermo-mechanical events and regional tectonics. These data are interpreted to constrain depositional systems and tectonophysiographic terranes. Palaeotopography and palaeobathymetry are derived from these tectonophysiographic terranes and depositional systems, and are further constrained using geological relationships, thermochronometric data, palaeoaltimetry indicators and modern analogues. Throughout this process, our plate model is iteratively tested against our palaeogeographies and their environmental consequences. Both the plate model and the palaeogeographies are refined until we have obtained a consistent and scientifically robust result. In this presentation we show an example from Southeast Asia, where the plate model complexity and wide variation in hypotheses has huge implications for the palaeogeographic interpretation, which can then be tested using geological observations from well and seismic data. For example, the Khorat Plateau Basin, Northeastern Thailand, comprises a succession of fluvial clastics during the Cretaceous, which include the evaporites of the Maha Sarakham Formation. These have been variously interpreted as indicative of saline lake or marine incursion depositional environments. We show how the feasibility of these different hypotheses is dependent on the regional palaeogeography (whether a marine link is possible), which in turn depends on the underlying plate model. We show two models with widely different environmental consequences. A more robust model that takes into account all these consequences, as well as data, can be defined by iterating through the consequences of the plate model and geological observations.
Verification of ICESat-2/ATLAS Science Receiver Algorithm Onboard Databases

NASA Astrophysics Data System (ADS)

Carabajal, C. C.; Saba, J. L.; Leigh, H. W.; Magruder, L. A.; Urban, T. J.; Mcgarry, J.; Schutz, B. E.

2013-12-01

NASA's ICESat-2 mission will fly the Advanced Topographic Laser Altimetry System (ATLAS) instrument on a 3-year mission scheduled to launch in 2016. ATLAS is a single-photon detection system transmitting at 532nm with a laser repetition rate of 10 kHz, and a 6 spot pattern on the Earth's surface. A set of onboard Receiver Algorithms will perform signal processing to reduce the data rate and data volume to acceptable levels. These Algorithms distinguish surface echoes from the background noise, limit the daily data volume, and allow the instrument to telemeter only a small vertical region about the signal. For this purpose, three onboard databases are used: a Surface Reference Map (SRM), a Digital Elevation Model (DEM), and a Digital Relief Maps (DRMs). The DEM provides minimum and maximum heights that limit the signal search region of the onboard algorithms, including a margin for errors in the source databases, and onboard geolocation. Since the surface echoes will be correlated while noise will be randomly distributed, the signal location is found by histogramming the received event times and identifying the histogram bins with statistically significant counts. Once the signal location has been established, the onboard Digital Relief Maps (DRMs) will be used to determine the vertical width of the telemetry band about the signal. University of Texas-Center for Space Research (UT-CSR) is developing the ICESat-2 onboard databases, which are currently being tested using preliminary versions and equivalent representations of elevation ranges and relief more recently developed at Goddard Space Flight Center (GSFC). Global and regional elevation models have been assessed in terms of their accuracy using ICESat geodetic control, and have been used to develop equivalent representations of the onboard databases for testing against the UT-CSR databases, with special emphasis on the ice sheet regions. A series of verification checks have been implemented, including comparisons against ICESat altimetry for selected regions with tall vegetation and high relief. The extensive verification effort by the Receiver Algorithm team at GSFC is aimed at assuring that the onboard databases are sufficiently accurate. We will present the results of those assessments and verification tests, along with measures taken to implement modifications to the databases to optimize their use by the receiver algorithms. Companion presentations by McGarry et al. and Leigh et al. describe the details on the ATLAS Onboard Receiver Algorithms and databases development, respectively.
Recalculation of regional and detailed gravity database from Slovak Republic and qualitative interpretation of new generation Bouguer anomaly map

NASA Astrophysics Data System (ADS)

Pasteka, Roman; Zahorec, Pavol; Mikuska, Jan; Szalaiova, Viktoria; Papco, Juraj; Krajnak, Martin; Kusnirak, David; Panisova, Jaroslava; Vajda, Peter; Bielik, Miroslav

2014-05-01

In this contribution results of the running project "Bouguer anomalies of new generation and the gravimetrical model of Western Carpathians (APVV-0194-10)" are presented. The existing homogenized regional database (212478 points) was enlarged by approximately 107 500 archive detailed gravity measurements. These added gravity values were measured since the year 1976 to the present, therefore they need to be unified and reprocessed. The improved positions of more than 8500 measured points were acquired by digitizing of archive maps (we recognized some local errors within particular data sets). Besides the local errors (due to the wrong positions, heights or gravity of measured points) we have found some areas of systematic errors probably due to the gravity measurement or processing errors. Some of them were confirmed and consequently corrected by field measurements within the frame of current project. Special attention is paid to the recalculation of the terrain corrections - we have used a new developed software as well as the latest version of digital terrain model of Slovakia DMR-3. Main improvement of the new terrain corrections evaluation algorithm is the possibility to calculate it in the real gravimeter position and involving of 3D polyhedral bodies approximation (accepting the spherical approximation of Earth's curvature). We have realized several tests by means of the introduction of non-standard distant relief effects introduction. A new complete Bouguer anomalies map was constructed and transformed by means of higher derivatives operators (tilt derivatives, TDX, theta-derivatives and the new TDXAS transformation), using the regularization approach. A new interesting regional lineament of probably neotectonic character was recognized in the new map of complete Bouguer anomalies and it was confirmed also by realized in-situ field measurements.

5D Modelling: An Efficient Approach for Creating Spatiotemporal Predictive 3D Maps of Large-Scale Cultural Resources

NASA Astrophysics Data System (ADS)

Doulamis, A.; Doulamis, N.; Ioannidis, C.; Chrysouli, C.; Grammalidis, N.; Dimitropoulos, K.; Potsiou, C.; Stathopoulou, E.-K.; Ioannides, M.

2015-08-01

Outdoor large-scale cultural sites are mostly sensitive to environmental, natural and human made factors, implying an imminent need for a spatio-temporal assessment to identify regions of potential cultural interest (material degradation, structuring, conservation). On the other hand, in Cultural Heritage research quite different actors are involved (archaeologists, curators, conservators, simple users) each of diverse needs. All these statements advocate that a 5D modelling (3D geometry plus time plus levels of details) is ideally required for preservation and assessment of outdoor large scale cultural sites, which is currently implemented as a simple aggregation of 3D digital models at different time and levels of details. The main bottleneck of such an approach is its complexity, making 5D modelling impossible to be validated in real life conditions. In this paper, a cost effective and affordable framework for 5D modelling is proposed based on a spatial-temporal dependent aggregation of 3D digital models, by incorporating a predictive assessment procedure to indicate which regions (surfaces) of an object should be reconstructed at higher levels of details at next time instances and which at lower ones. In this way, dynamic change history maps are created, indicating spatial probabilities of regions needed further 3D modelling at forthcoming instances. Using these maps, predictive assessment can be made, that is, to localize surfaces within the objects where a high accuracy reconstruction process needs to be activated at the forthcoming time instances. The proposed 5D Digital Cultural Heritage Model (5D-DCHM) is implemented using open interoperable standards based on the CityGML framework, which also allows the description of additional semantic metadata information. Visualization aspects are also supported to allow easy manipulation, interaction and representation of the 5D-DCHM geometry and the respective semantic information. The open source 3DCityDB incorporating a PostgreSQL geo-database is used to manage and manipulate 3D data and their semantics.
Modeling livestock population structure: a geospatial database for Ontario swine farms.

PubMed

Khan, Salah Uddin; O'Sullivan, Terri L; Poljak, Zvonimir; Alsop, Janet; Greer, Amy L

2018-01-30

Infectious diseases in farmed animals have economic, social, and health consequences. Foreign animal diseases (FAD) of swine are of significant concern. Mathematical and simulation models are often used to simulate FAD outbreaks and best practices for control. However, simulation outcomes are sensitive to the population structure used. Within Canada, access to individual swine farm population data with which to parameterize models is a challenge because of privacy concerns. Our objective was to develop a methodology to model the farmed swine population in Ontario, Canada that could represent the existing population structure and improve the efficacy of simulation models. We developed a swine population model based on the factors such as facilities supporting farm infrastructure, land availability, zoning and local regulations, and natural geographic barriers that could affect swine farming in Ontario. Assigned farm locations were equal to the swine farm density described in the 2011 Canadian Census of Agriculture. Farms were then randomly assigned to farm types proportional to the existing swine herd types. We compared the swine population models with a known database of swine farm locations in Ontario and found that the modeled population was representative of farm locations with a high accuracy (AUC: 0.91, Standard deviation: 0.02) suggesting that our algorithm generated a reasonable approximation of farm locations in Ontario. In the absence of a readily accessible dataset providing details of the relative locations of swine farms in Ontario, development of a model livestock population that captures key characteristics of the true population structure while protecting privacy concerns is an important methodological advancement. This methodology will be useful for individuals interested in modeling the spread of pathogens between farms across a landscape and using these models to evaluate disease control strategies.
Huntington's Disease Research Roster Support with a Microcomputer Database Management System

PubMed Central

Gersting, J. M.; Conneally, P. M.; Beidelman, K.

1983-01-01

This paper chronicles the MEGADATS (Medical Genetics Acquisition and DAta Transfer System) database development effort in collecting, storing, retrieving, and plotting human family pedigrees. The newest system, MEGADATS-3M, is detailed. Emphasis is on the microcomputer version of MEGADATS-3M and its use to support the Huntington's Disease research roster project. Examples of data input and pedigree plotting are included.
Systemic Vulnerabilities to Suicide among Veterans from the Iraq and Afghanistan Conflicts: Review of Case Reports from a National Veterans Affairs Database

ERIC Educational Resources Information Center

Mills, Peter D.; Huber, Samuel J.; Watts, Bradley Vince; Bagian, James P.

2011-01-01

While suicide among recently returned veterans is of great concern, it is a relatively rare occurrence within individual hospitals and clinics. Root cause analysis (RCA) generates a detailed case report that can be used to identify system-based vulnerabilities following an adverse event. Review of a national database of RCA reports may identify…
Preliminary geologic map of the Piru 7.5' quadrangle, southern California: a digital database

USGS Publications Warehouse

Yerkes, R.F.; Campbell, Russell H.

1995-01-01

This Open-File report is a digital geologic map database. This pamphlet serves to introduce and describe the digital data. There is no paper map included in the Open-File report. This digital map database is compiled from previously published sources combined with some new mapping and modifications in nomenclature. The geologic map database delineates map units that are identified by general age and lithology following the stratigraphic nomenclature of the U. S. Geological Survey. For detailed descriptions of the units, their stratigraphic relations and sources of geologic mapping consult Yerkes and Campbell (1995). More specific information about the units may be available in the original sources.
Graphic-based musculoskeletal model for biomechanical analyses and animation.

PubMed

Chao, Edmund Y S

2003-04-01

The ability to combine physiology and engineering analyses with computer sciences has opened the door to the possibility of creating the 'Virtual Human' reality. This paper presents a broad foundation for a full-featured biomechanical simulator for the human musculoskeletal system physiology. This simulation technology unites the expertise in biomechanical analysis and graphic modeling to investigate joint and connective tissue mechanics at the structural level and to visualize the results in both static and animated forms together with the model. Adaptable anatomical models including prosthetic implants and fracture fixation devices and a robust computational infrastructure for static, kinematic, kinetic, and stress analyses under varying boundary and loading conditions are incorporated on a common platform, the VIMS (Virtual Interactive Musculoskeletal System). Within this software system, a manageable database containing long bone dimensions, connective tissue material properties and a library of skeletal joint system functional activities and loading conditions are also available and they can easily be modified, updated and expanded. Application software is also available to allow end-users to perform biomechanical analyses interactively. This paper details the design, capabilities, and features of the VIMS development at Johns Hopkins University, an effort possible only through academic and commercial collaborations. Examples using these models and the computational algorithms in a virtual laboratory environment are used to demonstrate the utility of this unique database and simulation technology. This integrated system will impact on medical education, basic research, device development and application, and clinical patient care related to musculoskeletal diseases, trauma, and rehabilitation.
Reusable Rocket Engine Operability Modeling and Analysis

NASA Technical Reports Server (NTRS)

Christenson, R. L.; Komar, D. R.

1998-01-01

This paper describes the methodology, model, input data, and analysis results of a reusable launch vehicle engine operability study conducted with the goal of supporting design from an operations perspective. Paralleling performance analyses in schedule and method, this requires the use of metrics in a validated operations model useful for design, sensitivity, and trade studies. Operations analysis in this view is one of several design functions. An operations concept was developed given an engine concept and the predicted operations and maintenance processes incorporated into simulation models. Historical operations data at a level of detail suitable to model objectives were collected, analyzed, and formatted for use with the models, the simulations were run, and results collected and presented. The input data used included scheduled and unscheduled timeline and resource information collected into a Space Transportation System (STS) Space Shuttle Main Engine (SSME) historical launch operations database. Results reflect upon the importance not only of reliable hardware but upon operations and corrective maintenance process improvements.
Designing tools for oil exploration using nuclear modeling

NASA Astrophysics Data System (ADS)

Mauborgne, Marie-Laure; Allioli, Françoise; Manclossi, Mauro; Nicoletti, Luisa; Stoller, Chris; Evans, Mike

2017-09-01

When designing nuclear tools for oil exploration, one of the first steps is typically nuclear modeling for concept evaluation and initial characterization. Having an accurate model, including the availability of accurate cross sections, is essential to reduce or avoid time consuming and costly design iterations. During tool response characterization, modeling is benchmarked with experimental data and then used to complement and to expand the database to make it more detailed and inclusive of more measurement environments which are difficult or impossible to reproduce in the laboratory. We present comparisons of our modeling results obtained using the ENDF/B-VI and ENDF/B-VII cross section data bases, focusing on the response to a few elements found in the tool, borehole and subsurface formation. For neutron-induced inelastic and capture gamma ray spectroscopy, major obstacles may be caused by missing or inaccurate cross sections for essential materials. We show examples of the benchmarking of modeling results against experimental data obtained during tool characterization and discuss observed discrepancies.
Numerical analysis of hypersonic turbulent film cooling flows

NASA Technical Reports Server (NTRS)

Chen, Y. S.; Chen, C. P.; Wei, H.

1992-01-01

As a building block, numerical capabilities for predicting heat flux and turbulent flowfields of hypersonic vehicles require extensive model validations. Computational procedures for calculating turbulent flows and heat fluxes for supersonic film cooling with parallel slot injections are described in this study. Two injectant mass flow rates with matched and unmatched pressure conditions using the database of Holden et al. (1990) are considered. To avoid uncertainties associated with the boundary conditions in testing turbulence models, detailed three-dimensional flowfields of the injection nozzle were calculated. Two computational fluid dynamics codes, GASP and FDNS, with the algebraic Baldwin-Lomax and k-epsilon models with compressibility corrections were used. It was found that the B-L model which resolves near-wall viscous sublayer is very sensitive to the inlet boundary conditions at the nozzle exit face. The k-epsilon models with improved wall functions are less sensitive to the inlet boundary conditions. The testings show that compressibility corrections are necessary for the k-epsilon model to realistically predict the heat fluxes of the hypersonic film cooling problems.
Let's Go Off the Grid: Subsurface Flow Modeling With Analytic Elements

NASA Astrophysics Data System (ADS)

Bakker, M.

2017-12-01

Subsurface flow modeling with analytic elements has the major advantage that no grid or time stepping are needed. Analytic element formulations exist for steady state and transient flow in layered aquifers and unsaturated flow in the vadose zone. Analytic element models are vector-based and consist of points, lines and curves that represent specific features in the subsurface. Recent advances allow for the simulation of partially penetrating wells and multi-aquifer wells, including skin effect and wellbore storage, horizontal wells of poly-line shape including skin effect, sharp changes in subsurface properties, and surface water features with leaky beds. Input files for analytic element models are simple, short and readable, and can easily be generated from, for example, GIS databases. Future plans include the incorporation of analytic element in parts of grid-based models where additional detail is needed. This presentation will give an overview of advanced flow features that can be modeled, many of which are implemented in free and open-source software.
Modelling Inter-relationships among water, governance, human development variables in developing countries with Bayesian networks.

NASA Astrophysics Data System (ADS)

Dondeynaz, C.; Lopez-Puga, J.; Carmona-Moreno, C.

2012-04-01

Improving Water and Sanitation Services (WSS), being a complex and interdisciplinary issue, passes through collaboration and coordination of different sectors (environment, health, economic activities, governance, and international cooperation). This inter-dependency has been recognised with the adoption of the "Integrated Water Resources Management" principles that push for the integration of these various dimensions involved in WSS delivery to ensure an efficient and sustainable management. The understanding of these interrelations appears as crucial for decision makers in the water sector in particular in developing countries where WSS still represent an important leverage for livelihood improvement. In this framework, the Joint Research Centre of the European Commission has developed a coherent database (WatSan4Dev database) containing 29 indicators from environmental, socio-economic, governance and financial aid flows data focusing on developing countries (Celine et al, 2011 under publication). The aim of this work is to model the WatSan4Dev dataset using probabilistic models to identify the key variables influencing or being influenced by the water supply and sanitation access levels. Bayesian Network Models are suitable to map the conditional dependencies between variables and also allows ordering variables by level of influence on the dependent variable. Separated models have been built for water supply and for sanitation because of different behaviour. The models are validated if complying with statistical criteria but either with scientific knowledge and literature. A two steps approach has been adopted to build the structure of the model; Bayesian network is first built for each thematic cluster of variables (e.g governance, agricultural pressure, or human development) keeping a detailed level for interpretation later one. A global model is then built based on significant indicators of each cluster being previously modelled. The structure of the relationships between variable are set a priori according to literature and/or experience in the field (expert knowledge). The statistical validation is verified according to error rate of classification, and the significance of the variables. Sensibility analysis has also been performed to characterise the relative influence of every single variable in the model. Once validated, the models allow the estimation of impact of each variable on the behaviour of the water supply or sanitation providing an interesting mean to test scenarios and predict variables behaviours. The choices made, methods and description of the various models, for each cluster as well as the global model for water supply and sanitation will be presented. Key results and interpretation of the relationships depicted by the models will be detailed during the conference.
BDVC (Bimodal Database of Violent Content): A database of violent audio and video

NASA Astrophysics Data System (ADS)

Rivera Martínez, Jose Luis; Mijes Cruz, Mario Humberto; Rodríguez Vázqu, Manuel Antonio; Rodríguez Espejo, Luis; Montoya Obeso, Abraham; García Vázquez, Mireya Saraí; Ramírez Acosta, Alejandro Álvaro

2017-09-01

Nowadays there is a trend towards the use of unimodal databases for multimedia content description, organization and retrieval applications of a single type of content like text, voice and images, instead bimodal databases allow to associate semantically two different types of content like audio-video, image-text, among others. The generation of a bimodal database of audio-video implies the creation of a connection between the multimedia content through the semantic relation that associates the actions of both types of information. This paper describes in detail the used characteristics and methodology for the creation of the bimodal database of violent content; the semantic relationship is stablished by the proposed concepts that describe the audiovisual information. The use of bimodal databases in applications related to the audiovisual content processing allows an increase in the semantic performance only and only if these applications process both type of content. This bimodal database counts with 580 audiovisual annotated segments, with a duration of 28 minutes, divided in 41 classes. Bimodal databases are a tool in the generation of applications for the semantic web.
Systematic approach to verification and validation: High explosive burn models

DOE Office of Scientific and Technical Information (OSTI.GOV)

Menikoff, Ralph; Scovel, Christina A.

2012-04-16

Most material models used in numerical simulations are based on heuristics and empirically calibrated to experimental data. For a specific model, key questions are determining its domain of applicability and assessing its relative merits compared to other models. Answering these questions should be a part of model verification and validation (V and V). Here, we focus on V and V of high explosive models. Typically, model developers implemented their model in their own hydro code and use different sets of experiments to calibrate model parameters. Rarely can one find in the literature simulation results for different models of the samemore » experiment. Consequently, it is difficult to assess objectively the relative merits of different models. This situation results in part from the fact that experimental data is scattered through the literature (articles in journals and conference proceedings) and that the printed literature does not allow the reader to obtain data from a figure in electronic form needed to make detailed comparisons among experiments and simulations. In addition, it is very time consuming to set up and run simulations to compare different models over sufficiently many experiments to cover the range of phenomena of interest. The first difficulty could be overcome if the research community were to support an online web based database. The second difficulty can be greatly reduced by automating procedures to set up and run simulations of similar types of experiments. Moreover, automated testing would be greatly facilitated if the data files obtained from a database were in a standard format that contained key experimental parameters as meta-data in a header to the data file. To illustrate our approach to V and V, we have developed a high explosive database (HED) at LANL. It now contains a large number of shock initiation experiments. Utilizing the header information in a data file from HED, we have written scripts to generate an input file for a hydro code, run a simulation, and generate a comparison plot showing simulated and experimental velocity gauge data. These scripts are then applied to several series of experiments and to several HE burn models. The same systematic approach is applicable to other types of material models; for example, equations of state models and material strength models.« less
A priori and a posteriori analyses of the flamelet/progress variable approach for supersonic combustion

NASA Astrophysics Data System (ADS)

Saghafian, Amirreza; Pitsch, Heinz

2012-11-01

A compressible flamelet/progress variable approach (CFPV) has been devised for high-speed flows. Temperature is computed from the transported total energy and tabulated species mass fractions and the source term of the progress variable is rescaled with pressure and temperature. The combustion is thus modeled by three additional scalar equations and a chemistry table that is computed in a pre-processing step. Three-dimensional direct numerical simulation (DNS) databases of reacting supersonic turbulent mixing layer with detailed chemistry are analyzed to assess the underlying assumptions of CFPV. Large eddy simulations (LES) of the same configuration using the CFPV method have been performed and compared with the DNS results. The LES computations are based on the presumed subgrid PDFs of mixture fraction and progress variable, beta function and delta function respectively, which are assessed using DNS databases. The flamelet equation budget is also computed to verify the validity of CFPV method for high-speed flows.
Toward Soil Spatial Information Systems (SSIS) for global modeling and ecosystem management

NASA Technical Reports Server (NTRS)

Baumgardner, Marion F.

1995-01-01

The general objective is to conduct research to contribute toward the realization of a world soils and terrain (SOTER) database, which can stand alone or be incorporated into a more complete and comprehensive natural resources digital information system. The following specific objectives are focussed on: (1) to conduct research related to (a) translation and correlation of different soil classification systems to the SOTER database legend and (b) the inferfacing of disparate data sets in support of the SOTER Project; (2) to examine the potential use of AVHRR (Advanced Very High Resolution Radiometer) data for delineating meaningful soils and terrain boundaries for small scale soil survey (range of scale: 1:250,000 to 1:1,000,000) and terrestrial ecosystem assessment and monitoring; and (3) to determine the potential use of high dimensional spectral data (220 reflectance bands with 10 m spatial resolution) for delineating meaningful soils boundaries and conditions for the purpose of detailed soil survey and land management.
Process description language: an experiment in robust programming for manufacturing systems

NASA Astrophysics Data System (ADS)

Spooner, Natalie R.; Creak, G. Alan

1998-10-01

Maintaining stable, robust, and consistent software is difficult in face of the increasing rate of change of customers' preferences, materials, manufacturing techniques, computer equipment, and other characteristic features of manufacturing systems. It is argued that software is commonly difficult to keep up to date because many of the implications of these changing features on software details are obscure. A possible solution is to use a software generation system in which the transformation of system properties into system software is made explicit. The proposed generation system stores the system properties, such as machine properties, product properties and information on manufacturing techniques, in databases. As a result this information, on which system control is based, can also be made available to other programs. In particular, artificial intelligence programs such as fault diagnosis programs, can benefit from using the same information as the control system, rather than a separate database which must be developed and maintained separately to ensure consistency. Experience in developing a simplified model of such a system is presented.
NASA's experience in the international exchange of scientific and technical information in the aerospace field

NASA Technical Reports Server (NTRS)

Thibideau, Philip A.

1989-01-01

The early NASA international scientific and technical information (STI) exchange arrangements were usually detailed in correspondence with the librarians of the institutions involved. While this type of exchange, which involved only hardcopy (paper) products, grew to include some 220 organization in 43 countries, NASA's main focus shifted substantially to the STI relationship with the European Space Agency (ESA) which began in 1964. The NASA/ESA Tripartite Exchange Program, which now has more than 500 participants, provides more than 4,000 highly-relevant technical reports, fully processed, for the NASA produced 'Aerospace Database'. In turn, NASA provides an updated copy of this Database, known in Europe as the 'NASA File', for access, through ESA's Information Retrieval Service, by participating European organizations. Our experience in the evolving cooperation with ESA has established the 'model' for our more recent exchange agreements with Israel, Australia, Canada, and one under negotiation with Japan. The results of these agreements are made available to participating European organizations through the NASA File.
On the orbital evolution of the Lyrid meteoroid stream

NASA Astrophysics Data System (ADS)

Kornoš, Leonard; Tóth, Juraj; Porubčan, Vladimír; Klačka, Jozef; Nagy, Roman; Rudawska, Regina

2015-12-01

A detailed analysis of the Lyrid video orbits from the EDMOND database is performed. Applying selective methods, the weighted mean orbit and mean geophysical parameters are derived. The occurrence of orbits with the semimajor axes smaller than 35 AU, in comparison with the value of 55 AU of the parent comet Thatcher, is about 80%, in the set of higher quality data of the Lyrids in the EDMOND database. The gravitational orbital evolutions of Thatcher and modelled particles ejected in five perihelion passages of the comet in the past are studied. Both, orbits of the comet and modelled particles, are under quite strong disturbing influence of Jupiter, Saturn and Earth. After the integration to the present, the mean theoretical radiants, the mean geocentric velocities and periods of activity of particles approaching the Earth's orbit were calculated. The mean orbits of the modelled streams of particles ejected from different perihelia match well the mean Lyrid orbit from the IAU MDC and the observed video Lyrids from the EDMOND database. The particles released in the two oldest simulated perihelion passages of the parent comet are most responsible for the occurrence of the Earth-crossing orbits with the semimajor axes smaller than 35 AU, but no one below 20 AU. The influence of non-gravitational effects, mainly solar radiation, may shorten semimajor axis of a submilimeter particle with density of 0.3 g/cm3 by more than half during an evolution of 50 000 years. A common influence of gravitational perturbations and non-gravitational effects can provide a dynamical way to the short-period orbits. However, this process is for millimeter and larger particles (video and photographic) less effective.
The Unified North American Soil Map and Its Implication on the Soil Organic Carbon Stock in North America

DOE Office of Scientific and Technical Information (OSTI.GOV)

Liu, Shishi; Wei, Yaxing; Post, Wilfred M

2013-01-01

The Unified North American Soil Map (UNASM) was developed to provide more accurate regional soil information for terrestrial biosphere modeling. The UNASM combines information from state-of-the-art U.S. STATSGO2 and Soil Landscape of Canada (SLCs) databases. The area not covered by these datasets is filled with the Harmonized World Soil Database version 1.1 (HWSD1.1). The UNASM contains maximum soil depth derived from the data source as well as seven soil attributes (including sand, silt, and clay content, gravel content, organic carbon content, pH, and bulk density) for the top soil layer (0-30 cm) and the sub soil layer (30-100 cm) respectively,more » of the spatial resolution of 0.25 degrees in latitude and longitude. There are pronounced differences in the spatial distributions of soil properties and soil organic carbon between UNASM and HWSD, but the UNASM overall provides more detailed and higher-quality information particularly in Alaska and central Canada. To provide more accurate and up-to-date estimate of soil organic carbon stock in North America, we incorporated Northern Circumpolar Soil Carbon Database (NCSCD) into the UNASM. The estimate of total soil organic carbon mass in the upper 100 cm soil profile based on the improved UNASM is 347.70 Pg, of which 24.7% is under trees, 14.2% is under shrubs, and 1.3% is under grasses and 3.8% under crops. This UNASM data will provide a resource for use in land surface and terrestrial biogeochemistry modeling both for input of soil characteristics and for benchmarking model output.« less
Java Web Simulation (JWS); a web based database of kinetic models.

PubMed

Snoep, J L; Olivier, B G

2002-01-01

Software to make a database of kinetic models accessible via the internet has been developed and a core database has been set up at http://jjj.biochem.sun.ac.za/. This repository of models, available to everyone with internet access, opens a whole new way in which we can make our models public. Via the database, a user can change enzyme parameters and run time simulations or steady state analyses. The interface is user friendly and no additional software is necessary. The database currently contains 10 models, but since the generation of the program code to include new models has largely been automated the addition of new models is straightforward and people are invited to submit their models to be included in the database.

Legacy tree data: A national database of detailed tree measurements for volume, weight, and physical properties

Treesearch

P.J. Radtke; D.M. Walker; A.R. Weiskittel; J. Frank; J.W. Coulston; J.A. Westfall

2015-01-01

Forest mensurationists in the United States have expended considerable effort over the past century making detailed observations of treesâ dimensions. In recent decades efforts have focused increasingly on weights and physical properties. Work is underway to compile original measurements from past volume, taper, and weight or biomass studies for North American tree...
Preliminary geologic map of the Oat Mountain 7.5' quadrangle, Southern California: a digital database

USGS Publications Warehouse

Yerkes, R.F.; Campbell, Russell H.

1995-01-01

This database, identified as "Preliminary Geologic Map of the Oat Mountain 7.5' Quadrangle, southern California: A Digital Database," has been approved for release and publication by the Director of the USGS. Although this database has been reviewed and is substantially complete, the USGS reserves the right to revise the data pursuant to further analysis and review. This database is released on condition that neither the USGS nor the U. S. Government may be held liable for any damages resulting from its use. This digital map database is compiled from previously published sources combined with some new mapping and modifications in nomenclature. The geologic map database delineates map units that are identified by general age and lithology following the stratigraphic nomenclature of the U. S. Geological Survey. For detailed descriptions of the units, their stratigraphic relations and sources of geologic mapping consult Yerkes and Campbell (1993). More specific information about the units may be available in the original sources.
Database of Mechanical Properties of Textile Composites

NASA Technical Reports Server (NTRS)

Delbrey, Jerry

1996-01-01

This report describes the approach followed to develop a database for mechanical properties of textile composites. The data in this database is assembled from NASA Advanced Composites Technology (ACT) programs and from data in the public domain. This database meets the data documentation requirements of MIL-HDBK-17, Section 8.1.2, which describes in detail the type and amount of information needed to completely document composite material properties. The database focuses on mechanical properties of textile composite. Properties are available for a range of parameters such as direction, fiber architecture, materials, environmental condition, and failure mode. The composite materials in the database contain innovative textile architectures such as the braided, woven, and knitted materials evaluated under the NASA ACT programs. In summary, the database contains results for approximately 3500 coupon level tests, for ten different fiber/resin combinations, and seven different textile architectures. It also includes a limited amount of prepreg tape composites data from ACT programs where side-by-side comparisons were made.
keep your models up-to-date: connecting community mapping data to complex urban flood modelling

NASA Astrophysics Data System (ADS)

Winsemius, Hessel; Eilander, Dirk; Ward, Philip; Diaz Loaiza, Andres; Iliffe, Mark; Mawanda, Shaban; Luo, Tianyi; Kimacha, Nyambiri; Chen, Jorik

2017-04-01

The world is urbanizing rapidly. According to the United Nation's World Urbanization Prospect, 50% of the global population already lives in urban areas today. This number is expected to grow to 66% by 2050. The rapid changes in these urban environments go hand in hand with rapid changes in natural hazard risks, in particular in informal unplanned neighbourhoods. In Dar Es Salaam - Tanzania, flood risk dominates and given the rapid changes in the city, continuous updates of detailed street level hazard and risk mapping are needed to adequately support decision making for urban planning, infrastructure design and disaster response. Over the past years, the Ramani Huria and Zuia Mafuriko projects have mapped the most flood prone neighbourhoods, including roads, buildings, drainage and land use and contributed data to the open-source OpenStreetMap database. In this contribution, we will demonstrate how we mobilize these contributed data to establish dynamic flood models for Dar Es Salaam and keep these up-to-date by making a direct link between the data, and model schematization. The tools automatically establish a sound 1D drainage network as well as a high resolution terrain dataset, by fusing the OpenStreetMap data with existing lower resolution terrain data such as the globally available satellite based SRTM 30. It then translates these fully automatically into the inputs required for the D-HYDRO modeling suite. Our tools are built such that community and stakeholder knowledge can be included in the model details through workshops with the tools so that missing essential information about the city's details can be augmented on-the-fly. This process creates a continuous dialogue between members of the community that collect data, and stakeholders requiring data for flood models. Moreover, used taxonomy and data filtering can be configured to conditions in other cities, making the tools generic and scalable. The tools are made available open-source.
The MPI Facial Expression Database — A Validated Database of Emotional and Conversational Facial Expressions

PubMed Central

Kaulard, Kathrin; Cunningham, Douglas W.; Bülthoff, Heinrich H.; Wallraven, Christian

2012-01-01

The ability to communicate is one of the core aspects of human life. For this, we use not only verbal but also nonverbal signals of remarkable complexity. Among the latter, facial expressions belong to the most important information channels. Despite the large variety of facial expressions we use in daily life, research on facial expressions has so far mostly focused on the emotional aspect. Consequently, most databases of facial expressions available to the research community also include only emotional expressions, neglecting the largely unexplored aspect of conversational expressions. To fill this gap, we present the MPI facial expression database, which contains a large variety of natural emotional and conversational expressions. The database contains 55 different facial expressions performed by 19 German participants. Expressions were elicited with the help of a method-acting protocol, which guarantees both well-defined and natural facial expressions. The method-acting protocol was based on every-day scenarios, which are used to define the necessary context information for each expression. All facial expressions are available in three repetitions, in two intensities, as well as from three different camera angles. A detailed frame annotation is provided, from which a dynamic and a static version of the database have been created. In addition to describing the database in detail, we also present the results of an experiment with two conditions that serve to validate the context scenarios as well as the naturalness and recognizability of the video sequences. Our results provide clear evidence that conversational expressions can be recognized surprisingly well from visual information alone. The MPI facial expression database will enable researchers from different research fields (including the perceptual and cognitive sciences, but also affective computing, as well as computer vision) to investigate the processing of a wider range of natural facial expressions. PMID:22438875
Database architectures for Space Telescope Science Institute

NASA Astrophysics Data System (ADS)

Lubow, Stephen

1993-08-01

At STScI nearly all large applications require database support. A general purpose architecture has been developed and is in use that relies upon an extended client-server paradigm. Processing is in general distributed across three processes, each of which generally resides on its own processor. Database queries are evaluated on one such process, called the DBMS server. The DBMS server software is provided by a database vendor. The application issues database queries and is called the application client. This client uses a set of generic DBMS application programming calls through our STDB/NET programming interface. Intermediate between the application client and the DBMS server is the STDB/NET server. This server accepts generic query requests from the application and converts them into the specific requirements of the DBMS server. In addition, it accepts query results from the DBMS server and passes them back to the application. Typically the STDB/NET server is local to the DBMS server, while the application client may be remote. The STDB/NET server provides additional capabilities such as database deadlock restart and performance monitoring. This architecture is currently in use for some major STScI applications, including the ground support system. We are currently investigating means of providing ad hoc query support to users through the above architecture. Such support is critical for providing flexible user interface capabilities. The Universal Relation advocated by Ullman, Kernighan, and others appears to be promising. In this approach, the user sees the entire database as a single table, thereby freeing the user from needing to understand the detailed schema. A software layer provides the translation between the user and detailed schema views of the database. However, many subtle issues arise in making this transformation. We are currently exploring this scheme for use in the Hubble Space Telescope user interface to the data archive system (DADS).
Simple neural substrate predicts complex rhythmic structure in duetting birds

NASA Astrophysics Data System (ADS)

Amador, Ana; Trevisan, M. A.; Mindlin, G. B.

2005-09-01

Horneros (Furnarius Rufus) are South American birds well known for their oven-looking nests and their ability to sing in couples. Previous work has analyzed the rhythmic organization of the duets, unveiling a mathematical structure behind the songs. In this work we analyze in detail an extended database of duets. The rhythms of the songs are compatible with the dynamics presented by a wide class of dynamical systems: forced excitable systems. Compatible with this nonlinear rule, we build a biologically inspired model for how the neural and the anatomical elements may interact to produce the observed rhythmic patterns. This model allows us to synthesize songs presenting the acoustic and rhythmic features observed in real songs. We also make testable predictions in order to support our hypothesis.
A Summary of the Experimental Results for a Generic Tractor-Trailer in the Ames Research Center 7- by 10-Foot and 12-Foot Wind Tunnels

NASA Technical Reports Server (NTRS)

Storms, Bruce L.; Satran, Dale R.; Heineck, James T.; Walker, Stephen M.

2006-01-01

Experimental measurements of a generic tractor-trailer were obtained in two wind tunnels at Ames Research Center. After a preliminary study at atmospheric conditions in the 7- by 10-Foot Wind Tunnel, additional testing was conducted at Reynolds numbers corresponding to full-scale highway speeds in the 12-Foot Pressure Wind Tunnel. To facilitate computational modeling, the 1:8-scale geometry, designated the Generic Conventional Model, included a simplified underbody and omitted many small-scale details. The measurements included overall and component forces and moments, static and dynamic surface pressures, and three-component particle image velocimetry. This summary report highlights the effects of numerous drag reduction concepts and provides details of the model installation in both wind tunnels. To provide a basis for comparison, the wind-averaged drag coefficient was tabulated for all configurations tested. Relative to the baseline configuration representative of a modern class-8 tractor-trailer, the most effective concepts were the trailer base flaps and trailer belly box providing a drag-coefficient reduction of 0.0855 and 0.0494, respectively. Trailer side skirts were less effective yielding a drag reduction of 0.0260. The database of this experimental effort is publicly available for further analysis.
CBS Genome Atlas Database: a dynamic storage for bioinformatic results and sequence data.

PubMed

Hallin, Peter F; Ussery, David W

2004-12-12

Currently, new bacterial genomes are being published on a monthly basis. With the growing amount of genome sequence data, there is a demand for a flexible and easy-to-maintain structure for storing sequence data and results from bioinformatic analysis. More than 150 sequenced bacterial genomes are now available, and comparisons of properties for taxonomically similar organisms are not readily available to many biologists. In addition to the most basic information, such as AT content, chromosome length, tRNA count and rRNA count, a large number of more complex calculations are needed to perform detailed comparative genomics. DNA structural calculations like curvature and stacking energy, DNA compositions like base skews, oligo skews and repeats at the local and global level are just a few of the analysis that are presented on the CBS Genome Atlas Web page. Complex analysis, changing methods and frequent addition of new models are factors that require a dynamic database layout. Using basic tools like the GNU Make system, csh, Perl and MySQL, we have created a flexible database environment for storing and maintaining such results for a collection of complete microbial genomes. Currently, these results counts to more than 220 pieces of information. The backbone of this solution consists of a program package written in Perl, which enables administrators to synchronize and update the database content. The MySQL database has been connected to the CBS web-server via PHP4, to present a dynamic web content for users outside the center. This solution is tightly fitted to existing server infrastructure and the solutions proposed here can perhaps serve as a template for other research groups to solve database issues. A web based user interface which is dynamically linked to the Genome Atlas Database can be accessed via www.cbs.dtu.dk/services/GenomeAtlas/. This paper has a supplemental information page which links to the examples presented: www.cbs.dtu.dk/services/GenomeAtlas/suppl/bioinfdatabase.
miRwayDB: a database for experimentally validated microRNA-pathway associations in pathophysiological conditions

PubMed Central

Das, Sankha Subhra; Saha, Pritam

2018-01-01

Abstract MicroRNAs (miRNAs) are well-known as key regulators of diverse biological pathways. A series of experimental evidences have shown that abnormal miRNA expression profiles are responsible for various pathophysiological conditions by modulating genes in disease associated pathways. In spite of the rapid increase in research data confirming such associations, scientists still do not have access to a consolidated database offering these miRNA-pathway association details for critical diseases. We have developed miRwayDB, a database providing comprehensive information of experimentally validated miRNA-pathway associations in various pathophysiological conditions utilizing data collected from published literature. To the best of our knowledge, it is the first database that provides information about experimentally validated miRNA mediated pathway dysregulation as seen specifically in critical human diseases and hence indicative of a cause-and-effect relationship in most cases. The current version of miRwayDB collects an exhaustive list of miRNA-pathway association entries for 76 critical disease conditions by reviewing 663 published articles. Each database entry contains complete information on the name of the pathophysiological condition, associated miRNA(s), experimental sample type(s), regulation pattern (up/down) of miRNA, pathway association(s), targeted member of dysregulated pathway(s) and a brief description. In addition, miRwayDB provides miRNA, gene and pathway score to evaluate the role of a miRNA regulated pathways in various pathophysiological conditions. The database can also be used for other biomedical approaches such as validation of computational analysis, integrated analysis and prediction of computational model. It also offers a submission page to submit novel data from recently published studies. We believe that miRwayDB will be a useful tool for miRNA research community. Database URL: http://www.mirway.iitkgp.ac.in PMID:29688364
A Review of Hypersonics Aerodynamics, Aerothermodynamics and Plasmadynamics Activities within NASA's Fundamental Aeronautics Program

NASA Technical Reports Server (NTRS)

Salas, Manuel D.

2007-01-01

The research program of the aerodynamics, aerothermodynamics and plasmadynamics discipline of NASA's Hypersonic Project is reviewed. Details are provided for each of its three components: 1) development of physics-based models of non-equilibrium chemistry, surface catalytic effects, turbulence, transition and radiation; 2) development of advanced simulation tools to enable increased spatial and time accuracy, increased geometrical complexity, grid adaptation, increased physical-processes complexity, uncertainty quantification and error control; and 3) establishment of experimental databases from ground and flight experiments to develop better understanding of high-speed flows and to provide data to validate and guide the development of simulation tools.
High rate information systems - Architectural trends in support of the interdisciplinary investigator

NASA Technical Reports Server (NTRS)

Handley, Thomas H., Jr.; Preheim, Larry E.

1990-01-01

Data systems requirements in the Earth Observing System (EOS) Space Station Freedom (SSF) eras indicate increasing data volume, increased discipline interplay, higher complexity and broader data integration and interpretation. A response to the needs of the interdisciplinary investigator is proposed, considering the increasing complexity and rising costs of scientific investigation. The EOS Data Information System, conceived to be a widely distributed system with reliable communication links between central processing and the science user community, is described. Details are provided on information architecture, system models, intelligent data management of large complex databases, and standards for archiving ancillary data, using a research library, a laboratory and collaboration services.
Indexing of Patents of Pharmaceutical Composition in Online Databases

NASA Astrophysics Data System (ADS)

Online searching of patents of pharmaceutical composition is generally considered to be very difficult. It is due to the fact that the patent databases include extensive technical information as well as legal information so that they are not likely to have index proper to the pharmaceutical composition or even if they have such index, the scope and coverage of indexing is ambiguous. This paper discusses how patents of pharmaceutical composition are indexed in online databases such as WPl, CA, CLAIMS, USP and PATOLIS. Online searching of patents of pharmaceutical composition are also discussed in some detail.
Design of Student Information Management Database Application System for Office and Departmental Target Responsibility System

NASA Astrophysics Data System (ADS)

Zhou, Hui

It is the inevitable outcome of higher education reform to carry out office and departmental target responsibility system, in which statistical processing of student's information is an important part of student's performance review. On the basis of the analysis of the student's evaluation, the student information management database application system is designed by using relational database management system software in this paper. In order to implement the function of student information management, the functional requirement, overall structure, data sheets and fields, data sheet Association and software codes are designed in details.
JetWeb: A WWW interface and database for Monte Carlo tuning and validation

NASA Astrophysics Data System (ADS)

Butterworth, J. M.; Butterworth, S.

2003-06-01

A World Wide Web interface to a Monte Carlo tuning facility is described. The aim of the package is to allow rapid and reproducible comparisons to be made between detailed measurements at high-energy physics colliders and general physics simulation packages. The package includes a relational database, a Java servlet query and display facility, and clean interfaces to simulation packages and their parameters.
Piloting a Searchable Database of Dropout Prevention Programs in Nine Low-Income Urban School Districts in the Northeast and Islands Region. Issues & Answers. REL 2008-No. 046

ERIC Educational Resources Information Center

Myint-U, Athi; O'Donnell, Lydia; Osher, David; Petrosino, Anthony; Stueve, Ann

2008-01-01

Despite evidence that some dropout prevention programs have positive effects, whether districts in the region are using such evidence-based programs has not been documented. To generate and share knowledge on dropout programs and policies, this report details a project to create a searchable database with information on target audiences,…
US Army Research Laboratory Visualization Framework Design Document

DTIC Science & Technology

2016-01-01

This section highlights each module in the ARL-VF and subsequent sections provide details on how each module interacts . Fig. 2 ARL-VF with the...ConfigAgent MultiTouch VizDatabase VizController TUIO VizDatabase User VizDaemon VizDaemon VizDaemon VizDaemon VizDaemon TestPoint...received by the destination. The sequence diagram in Fig. 4 shows this interaction . Approved for public release; distribution unlimited. 13 Fig. 4
Quality Attribute-Guided Evaluation of NoSQL Databases: An Experience Report

DTIC Science & Technology

2014-10-18

detailed technical evaluations of NoSQL databases specifically, and big data systems in general, that have become apparent during our study... big data , software systems [Agarwal 2011]. Internet-born organizations such as Google and Amazon are at the cutting edge of this revolution...Chang 2008], along with those of numerous other big data innovators, have made a variety of open source and commercial data management technologies
Mass Storage Performance Information System

NASA Technical Reports Server (NTRS)

Scheuermann, Peter

2000-01-01

The purpose of this task is to develop a data warehouse to enable system administrators and their managers to gather information by querying the data logs of the MDSDS. Currently detailed logs capture the activity of the MDSDS internal to the different systems. The elements to be included in the data warehouse are requirements analysis, data cleansing, database design, database population, hardware/software acquisition, data transformation, query and report generation, and data mining.
MIPS: analysis and annotation of proteins from whole genomes

PubMed Central

Mewes, H. W.; Amid, C.; Arnold, R.; Frishman, D.; Güldener, U.; Mannhaupt, G.; Münsterkötter, M.; Pagel, P.; Strack, N.; Stümpflen, V.; Warfsmann, J.; Ruepp, A.

2004-01-01

The Munich Information Center for Protein Sequences (MIPS-GSF), Neuherberg, Germany, provides protein sequence-related information based on whole-genome analysis. The main focus of the work is directed toward the systematic organization of sequence-related attributes as gathered by a variety of algorithms, primary information from experimental data together with information compiled from the scientific literature. MIPS maintains automatically generated and manually annotated genome-specific databases, develops systematic classification schemes for the functional annotation of protein sequences and provides tools for the comprehensive analysis of protein sequences. This report updates the information on the yeast genome (CYGD), the Neurospora crassa genome (MNCDB), the database of complete cDNAs (German Human Genome Project, NGFN), the database of mammalian protein–protein interactions (MPPI), the database of FASTA homologies (SIMAP), and the interface for the fast retrieval of protein-associated information (QUIPOS). The Arabidopsis thaliana database, the rice database, the plant EST databases (MATDB, MOsDB, SPUTNIK), as well as the databases for the comprehensive set of genomes (PEDANT genomes) are described elsewhere in the 2003 and 2004 NAR database issues, respectively. All databases described, and the detailed descriptions of our projects can be accessed through the MIPS web server (http://mips.gsf.de). PMID:14681354

MIPS: analysis and annotation of proteins from whole genomes.

PubMed

Mewes, H W; Amid, C; Arnold, R; Frishman, D; Güldener, U; Mannhaupt, G; Münsterkötter, M; Pagel, P; Strack, N; Stümpflen, V; Warfsmann, J; Ruepp, A

2004-01-01

The Munich Information Center for Protein Sequences (MIPS-GSF), Neuherberg, Germany, provides protein sequence-related information based on whole-genome analysis. The main focus of the work is directed toward the systematic organization of sequence-related attributes as gathered by a variety of algorithms, primary information from experimental data together with information compiled from the scientific literature. MIPS maintains automatically generated and manually annotated genome-specific databases, develops systematic classification schemes for the functional annotation of protein sequences and provides tools for the comprehensive analysis of protein sequences. This report updates the information on the yeast genome (CYGD), the Neurospora crassa genome (MNCDB), the database of complete cDNAs (German Human Genome Project, NGFN), the database of mammalian protein-protein interactions (MPPI), the database of FASTA homologies (SIMAP), and the interface for the fast retrieval of protein-associated information (QUIPOS). The Arabidopsis thaliana database, the rice database, the plant EST databases (MATDB, MOsDB, SPUTNIK), as well as the databases for the comprehensive set of genomes (PEDANT genomes) are described elsewhere in the 2003 and 2004 NAR database issues, respectively. All databases described, and the detailed descriptions of our projects can be accessed through the MIPS web server (http://mips.gsf.de).
Meeting the mental health needs of today's college student: Reinventing services through Stepped Care 2.0.

PubMed

Cornish, Peter A; Berry, Gillian; Benton, Sherry; Barros-Gomes, Patricia; Johnson, Dawn; Ginsburg, Rebecca; Whelan, Beth; Fawcett, Emily; Romano, Vera

2017-11-01

A new stepped care model developed in North America reimagines the original United Kingdom model for the modern university campus environment. It integrates a range of established and emerging online mental health programs systematically along dimensions of treatment intensity and associated student autonomy. Program intensity can be either stepped up or down depending on level of client need. Because monitoring is configured to give both provider and client feedback on progress, the model empowers clients to participate actively in care options, decisions, and delivery. Not only is stepped care designed to be more efficient than traditional counseling services, early observations suggest it improves outcomes and access, including the elimination of service waitlists. This paper describes the new model in detail and outlines implementation experiences at 3 North American universities. While the experiences implementing the model have been positive, there is a need for development of technology that would facilitate more thorough evaluation. (PsycINFO Database Record (c) 2017 APA, all rights reserved).
The 2006 Kennedy Space Center Range Reference Atmosphere Model Validation Study and Sensitivity Analysis to the Performance of the National Aeronautics and Space Administration's Space Shuttle Vehicle

NASA Technical Reports Server (NTRS)

Burns, Lee; Decker, Ryan; Harrington, Brian; Merry, Carl

2008-01-01

The Kennedy Space Center (KSC) Range Reference Atmosphere (RRA) is a statistical model that summarizes wind and thermodynamic atmospheric variability from surface to 70 km. The National Aeronautics and Space Administration's (NASA) Space Shuttle program, which launches from KSC, utilizes the KSC RRA data to evaluate environmental constraints on various aspects of the vehicle during ascent. An update to the KSC RRA was recently completed. As part of the update, the Natural Environments Branch at NASA's Marshall Space Flight Center (MSFC) conducted a validation study and a comparison analysis to the existing KSC RRA database version 1983. Assessments to the Space Shuttle vehicle ascent profile characteristics were performed by JSC/Ascent Flight Design Division to determine impacts of the updated model to the vehicle performance. Details on the model updates and the vehicle sensitivity analyses with the update model are presented.
A global database of seismically and non-seismically triggered landslides for 2D/3D numerical modeling

NASA Astrophysics Data System (ADS)

Domej, Gisela; Bourdeau, Céline; Lenti, Luca; Pluta, Kacper

2017-04-01

Landsliding is a worldwide common phenomenon. Every year, and ranging in size from very small to enormous, landslides cause all too often loss of life and disastrous damage to infrastructure, property and the environment. One main reason for more frequent catastrophes is the growth of population on the Earth which entails extending urbanization to areas at risk. Landslides are triggered by a variety and combination of causes, among which the role of water and seismic activity appear to have the most serious consequences. In this regard, seismic shaking is of particular interest since topographic elevation as well as the landslide mass itself can trap waves and hence amplify incoming surface waves - a phenomenon known as "site effects". Research on the topic of landsliding due to seismic and non-seismic activity is extensive and a broad spectrum of methods for modeling slope deformation is available. Those methods range from pseudo-static and rigid-block based models to numerical models. The majority is limited to 2D modeling since more sophisticated approaches in 3D are still under development or calibration. However, the effect of lateral confinement as well as the mechanical properties of the adjacent bedrock might be of great importance because they may enhance the focusing of trapped waves in the landslide mass. A database was created to study 3D landslide geometries. It currently contains 277 distinct seismically and non-seismically triggered landslides spread all around the globe whose rupture bodies were measured in all available details. Therefore a specific methodology was developed to maintain predefined standards, to keep the bias as low as possible and to set up a query tool to explore the database. Besides geometry, additional information such as location, date, triggering factors, material, sliding mechanisms, event chronology, consequences, related literature, among other things are stored for every case. The aim of the database is to enable statistical analysis on a vast and newly updated set of data and to create numerical models in the future. It is possible to define groups of landslides sharing the same characteristics, or cases belonging to different groups can be used to compare their responses to external loads. Thus, different options exist to create input data for numerical models. This is very promising especially considering the possibility of comparing 2D and 3D models having the same framework conditions (i.e. geometry, material, etc.). Comparison of 2D and 3D approaches might contribute to a better understanding of landsliding phenomena to improve the hazard prevention.
FCDD: A Database for Fruit Crops Diseases.

PubMed

Chauhan, Rupal; Jasrai, Yogesh; Pandya, Himanshu; Chaudhari, Suman; Samota, Chand Mal

2014-01-01

Fruit Crops Diseases Database (FCDD) requires a number of biotechnology and bioinformatics tools. The FCDD is a unique bioinformatics resource that compiles information about 162 details on fruit crops diseases, diseases type, its causal organism, images, symptoms and their control. The FCDD contains 171 phytochemicals from 25 fruits, their 2D images and their 20 possible sequences. This information has been manually extracted and manually verified from numerous sources, including other electronic databases, textbooks and scientific journals. FCDD is fully searchable and supports extensive text search. The main focus of the FCDD is on providing possible information of fruit crops diseases, which will help in discovery of potential drugs from one of the common bioresource-fruits. The database was developed using MySQL. The database interface is developed in PHP, HTML and JAVA. FCDD is freely available. http://www.fruitcropsdd.com/
Database Performance Monitoring for the Photovoltaic Systems

DOE Office of Scientific and Technical Information (OSTI.GOV)

Klise, Katherine A.

The Database Performance Monitoring (DPM) software (copyright in processes) is being developed at Sandia National Laboratories to perform quality control analysis on time series data. The software loads time indexed databases (currently csv format), performs a series of quality control tests defined by the user, and creates reports which include summary statistics, tables, and graphics. DPM can be setup to run on an automated schedule defined by the user. For example, the software can be run once per day to analyze data collected on the previous day. HTML formatted reports can be sent via email or hosted on a website.more » To compare performance of several databases, summary statistics and graphics can be gathered in a dashboard view which links to detailed reporting information for each database. The software can be customized for specific applications.« less
A Framework for Cloudy Model Optimization and Database Storage

NASA Astrophysics Data System (ADS)

Calvén, Emilia; Helton, Andrew; Sankrit, Ravi

2018-01-01

We present a framework for producing Cloudy photoionization models of the nebular emission from novae ejecta and storing a subset of the results in SQL database format for later usage. The database can be searched for models best fitting observed spectral line ratios. Additionally, the framework includes an optimization feature that can be used in tandem with the database to search for and improve on models by creating new Cloudy models while, varying the parameters. The database search and optimization can be used to explore the structures of nebulae by deriving their properties from the best-fit models. The goal is to provide the community with a large database of Cloudy photoionization models, generated from parameters reflecting conditions within novae ejecta, that can be easily fitted to observed spectral lines; either by directly accessing the database using the framework code or by usage of a website specifically made for this purpose.
Conceptual and logical level of database modeling

NASA Astrophysics Data System (ADS)

Hunka, Frantisek; Matula, Jiri

2016-06-01

Conceptual and logical levels form the top most levels of database modeling. Usually, ORM (Object Role Modeling) and ER diagrams are utilized to capture the corresponding schema. The final aim of business process modeling is to store its results in the form of database solution. For this reason, value oriented business process modeling which utilizes ER diagram to express the modeling entities and relationships between them are used. However, ER diagrams form the logical level of database schema. To extend possibilities of different business process modeling methodologies, the conceptual level of database modeling is needed. The paper deals with the REA value modeling approach to business process modeling using ER-diagrams, and derives conceptual model utilizing ORM modeling approach. Conceptual model extends possibilities for value modeling to other business modeling approaches.
RESRAD model presentation

DOE Office of Scientific and Technical Information (OSTI.GOV)

Yu, C.; Faillace, E.; Chen, S.Y.

RESRAD was one of the multimedia models selected by the US Nuclear Regulatory Commission (NRC) to include in its workshop on radiation dose modeling and demonstration of compliance with the radiological criteria for license termination. This paper is a summary of the presentation made at the workshop and focuses on the 10 questions the NRC distributed to all participants prior to the workshop. The code selection criteria, which were solicited by the NRC, for demonstrating compliance with the license termination rule are also included. Among the RESRAD family of codes, RESRAD and RESRAD-BUILD are designed for evaluating radiological contamination inmore » soils and in buildings. Many documents have been published to support the use of these codes. This paper focuses on these two codes. The pathways considered, the databases and parameters used, quality control and quality assurance, benchmarking, verification and validation of these codes, and capabilities as well as limitations of these codes are discussed in detail.« less
On the Geometry of the X-Ray Emission from Pulsars. I. Model Formulation and Tests

NASA Astrophysics Data System (ADS)

Cappallo, Rigel; Laycock, Silas G. T.; Christodoulou, Dimitris M.

2017-12-01

X-ray pulsars are complex magnetized astronomical objects in which many different attributes shape the pulse profiles of the emitted radiation. For each pulsar, the orientation of the spin axis relative to our viewing angle, the inclination of the magnetic dipole axis relative to the spin axis, and the geometries of the emission regions all play key roles in producing its unique pulse profile. In this paper, we describe in detail a new geometric computer model for X-ray emitting pulsars and the tests that we carried out in order to ensure its proper operation. This model allows for simultaneous tuning of multiple parameters for each pulsar and, by fitting observed profiles, it has the potential to determine the underlying geometries of many pulsars whose pulse profiles have been cataloged and made public in modern X-ray databases.
Comparative analysis of perioperative complications between a multicenter prospective cervical deformity database and the Nationwide Inpatient Sample database.

PubMed

Passias, Peter G; Horn, Samantha R; Jalai, Cyrus M; Poorman, Gregory; Bono, Olivia J; Ramchandran, Subaraman; Smith, Justin S; Scheer, Justin K; Sciubba, Daniel M; Hamilton, D Kojo; Mundis, Gregory; Oh, Cheongeun; Klineberg, Eric O; Lafage, Virginie; Shaffrey, Christopher I; Ames, Christopher P

2017-11-01

Complication rates for adult cervical deformity are poorly characterized given the complexity and heterogeneity of cases. To compare perioperative complication rates following adult cervical deformity corrective surgery between a prospective multicenter database for patients with cervical deformity (PCD) and the Nationwide Inpatient Sample (NIS). Retrospective review of prospective databases. A total of 11,501 adult patients with cervical deformity (11,379 patients from the NIS and 122 patients from the PCD database). Perioperative medical and surgical complications. The NIS was queried (2001-2013) for cervical deformity discharges for patients ≥18 years undergoing cervical fusions using International Classification of Disease, Ninth Revision (ICD-9) coding. Patients ≥18 years from the PCD database (2013-2015) were selected. Equivalent complications were identified and rates were compared. Bonferroni correction (p<.004) was used for Pearson chi-square. Binary logistic regression was used to evaluate differences in complication rates between databases. A total of 11,379 patients from the NIS database and 122 patiens from the PCD database were identified. Patients from the PCD database were older (62.49 vs. 55.15, p<.001) but displayed similar gender distribution. Intraoperative complication rate was higher in the PCD (39.3%) group than in the NIS (9.2%, p<.001) database. The PCD database had an increased risk of reporting overall complications than the NIS (odds ratio: 2.81, confidence interval: 1.81-4.38). Only device-related complications were greater in the NIS (7.1% vs. 1.1%, p=.007). Patients from the PCD database displayed higher rates of the following complications: peripheral vascular (0.8% vs. 0.1%, p=.001), gastrointestinal (GI) (2.5% vs. 0.2%, p<.001), infection (8.2% vs. 0.5%, p<.001), dural tear (4.1% vs. 0.6%, p<.001), and dysphagia (9.8% vs. 1.9%, p<.001). Genitourinary, wound, and deep veinthrombosis (DVT) complications were similar between databases (p>.004). Based on surgicalapproach, the PCD reported higher GI and neurologic complication rates for combined anterior-posterior procedures (p<.001). For posterior-only procedures, the NIS had more device-related complications (12.4% vs. 0.1%, p=.003), whereas PCD had more infections (9.3% vs. 0.7%, p<.001). Analysis of the surgeon-maintained cervical database revealed higher overall and individual complication rates and higher data granularity. The nationwide database may underestimate complications of patients with adult cervical deformity (ACD) particularly in regard to perioperative surgical details owing to coding and deformity generalizations. The surgeon-maintained database captures the surgical details, but may underestimate some medical complications. Copyright © 2017 Elsevier Inc. All rights reserved.
Establishment and Assessment of Plasma Disruption and Warning Databases from EAST

NASA Astrophysics Data System (ADS)

Wang, Bo; Robert, Granetz; Xiao, Bingjia; Li, Jiangang; Yang, Fei; Li, Junjun; Chen, Dalong

2016-12-01

Disruption database and disruption warning database of the EAST tokamak had been established by a disruption research group. The disruption database, based on Structured Query Language (SQL), comprises 41 disruption parameters, which include current quench characteristics, EFIT equilibrium characteristics, kinetic parameters, halo currents, and vertical motion. Presently most disruption databases are based on plasma experiments of non-superconducting tokamak devices. The purposes of the EAST database are to find disruption characteristics and disruption statistics to the fully superconducting tokamak EAST, to elucidate the physics underlying tokamak disruptions, to explore the influence of disruption on superconducting magnets and to extrapolate toward future burning plasma devices. In order to quantitatively assess the usefulness of various plasma parameters for predicting disruptions, a similar SQL database to Alcator C-Mod for EAST has been created by compiling values for a number of proposed disruption-relevant parameters sampled from all plasma discharges in the 2015 campaign. The detailed statistic results and analysis of two databases on the EAST tokamak are presented. supported by the National Magnetic Confinement Fusion Science Program of China (No. 2014GB103000)
Walking on Exoplanets: Is Star Wars Right?

NASA Astrophysics Data System (ADS)

Ballesteros, Fernando J.; Luque, B.

2016-05-01

As the number of detected extrasolar planets increases, exoplanet databases become a valuable resource, confirming some details about planetary formation but also challenging our theories with new, unexpected properties.
A Unified Satellite-Observation Polar Stratospheric Cloud (PSC) Database for Long-Term Climate-Change Studies

NASA Technical Reports Server (NTRS)

Fromm, Michael; Pitts, Michael; Alfred, Jerome

2000-01-01

This report summarizes the project team's activity and accomplishments during the period 12 February, 1999 - 12 February, 2000. The primary objective of this project was to create and test a generic algorithm for detecting polar stratospheric clouds (PSC), an algorithm that would permit creation of a unified, long term PSC database from a variety of solar occultation instruments that measure aerosol extinction near 1000 nm The second objective was to make a database of PSC observations and certain relevant related datasets. In this report we describe the algorithm, the data we are making available, and user access options. The remainder of this document provides the details of the algorithm and the database offering.
ARIADNE: a Tracking System for Relationships in LHCb Metadata

NASA Astrophysics Data System (ADS)

Shapoval, I.; Clemencic, M.; Cattaneo, M.

2014-06-01

The data processing model of the LHCb experiment implies handling of an evolving set of heterogeneous metadata entities and relationships between them. The entities range from software and databases states to architecture specificators and software/data deployment locations. For instance, there is an important relationship between the LHCb Conditions Database (CondDB), which provides versioned, time dependent geometry and conditions data, and the LHCb software, which is the data processing applications (used for simulation, high level triggering, reconstruction and analysis of physics data). The evolution of CondDB and of the LHCb applications is a weakly-homomorphic process. It means that relationships between a CondDB state and LHCb application state may not be preserved across different database and application generations. These issues may lead to various kinds of problems in the LHCb production, varying from unexpected application crashes to incorrect data processing results. In this paper we present Ariadne - a generic metadata relationships tracking system based on the novel NoSQL Neo4j graph database. Its aim is to track and analyze many thousands of evolving relationships for cases such as the one described above, and several others, which would otherwise remain unmanaged and potentially harmful. The highlights of the paper include the system's implementation and management details, infrastructure needed for running it, security issues, first experience of usage in the LHCb production and potential of the system to be applied to a wider set of LHCb tasks.
Developing a list of reference chemicals for testing alternatives to whole fish toxicity tests.

PubMed

Schirmer, Kristin; Tanneberger, Katrin; Kramer, Nynke I; Völker, Doris; Scholz, Stefan; Hafner, Christoph; Lee, Lucy E J; Bols, Niels C; Hermens, Joop L M

2008-11-11

This paper details the derivation of a list of 60 reference chemicals for the development of alternatives to animal testing in ecotoxicology with a particular focus on fish. The chemicals were selected as a prerequisite to gather mechanistic information on the performance of alternative testing systems, namely vertebrate cell lines and fish embryos, in comparison to the fish acute lethality test. To avoid the need for additional experiments with fish, the U.S. EPA fathead minnow database was consulted as reference for whole organism responses. This database was compared to the Halle Registry of Cytotoxicity and a collation of data by the German EPA (UBA) on acute toxicity data derived from zebrafish embryos. Chemicals that were present in the fathead minnow database and in at least one of the other two databases were subject to selection. Criteria included the coverage of a wide range of toxicity and physico-chemical parameters as well as the determination of outliers of the in vivo/in vitro correlations. While the reference list of chemicals now guides our research for improving cell line and fish embryo assays to make them widely applicable, the list could be of benefit to search for alternatives in ecotoxicology in general. One example would be the use of this list to validate structure-activity prediction models, which in turn would benefit from a continuous extension of this list with regard to physico-chemical and toxicological data.
The MOLGENIS toolkit: rapid prototyping of biosoftware at the push of a button.

PubMed

Swertz, Morris A; Dijkstra, Martijn; Adamusiak, Tomasz; van der Velde, Joeri K; Kanterakis, Alexandros; Roos, Erik T; Lops, Joris; Thorisson, Gudmundur A; Arends, Danny; Byelas, George; Muilu, Juha; Brookes, Anthony J; de Brock, Engbert O; Jansen, Ritsert C; Parkinson, Helen

2010-12-21

There is a huge demand on bioinformaticians to provide their biologists with user friendly and scalable software infrastructures to capture, exchange, and exploit the unprecedented amounts of new *omics data. We here present MOLGENIS, a generic, open source, software toolkit to quickly produce the bespoke MOLecular GENetics Information Systems needed. The MOLGENIS toolkit provides bioinformaticians with a simple language to model biological data structures and user interfaces. At the push of a button, MOLGENIS' generator suite automatically translates these models into a feature-rich, ready-to-use web application including database, user interfaces, exchange formats, and scriptable interfaces. Each generator is a template of SQL, JAVA, R, or HTML code that would require much effort to write by hand. This 'model-driven' method ensures reuse of best practices and improves quality because the modeling language and generators are shared between all MOLGENIS applications, so that errors are found quickly and improvements are shared easily by a re-generation. A plug-in mechanism ensures that both the generator suite and generated product can be customized just as much as hand-written software. In recent years we have successfully evaluated the MOLGENIS toolkit for the rapid prototyping of many types of biomedical applications, including next-generation sequencing, GWAS, QTL, proteomics and biobanking. Writing 500 lines of model XML typically replaces 15,000 lines of hand-written programming code, which allows for quick adaptation if the information system is not yet to the biologist's satisfaction. Each application generated with MOLGENIS comes with an optimized database back-end, user interfaces for biologists to manage and exploit their data, programming interfaces for bioinformaticians to script analysis tools in R, Java, SOAP, REST/JSON and RDF, a tab-delimited file format to ease upload and exchange of data, and detailed technical documentation. Existing databases can be quickly enhanced with MOLGENIS generated interfaces using the 'ExtractModel' procedure. The MOLGENIS toolkit provides bioinformaticians with a simple model to quickly generate flexible web platforms for all possible genomic, molecular and phenotypic experiments with a richness of interfaces not provided by other tools. All the software and manuals are available free as LGPLv3 open source at http://www.molgenis.org.
SORTEZ: a relational translator for NCBI's ASN.1 database.

PubMed

Hart, K W; Searls, D B; Overton, G C

1994-07-01

The National Center for Biotechnology Information (NCBI) has created a database collection that includes several protein and nucleic acid sequence databases, a biosequence-specific subset of MEDLINE, as well as value-added information such as links between similar sequences. Information in the NCBI database is modeled in Abstract Syntax Notation 1 (ASN.1) an Open Systems Interconnection protocol designed for the purpose of exchanging structured data between software applications rather than as a data model for database systems. While the NCBI database is distributed with an easy-to-use information retrieval system, ENTREZ, the ASN.1 data model currently lacks an ad hoc query language for general-purpose data access. For that reason, we have developed a software package, SORTEZ, that transforms the ASN.1 database (or other databases with nested data structures) to a relational data model and subsequently to a relational database management system (Sybase) where information can be accessed through the relational query language, SQL. Because the need to transform data from one data model and schema to another arises naturally in several important contexts, including efficient execution of specific applications, access to multiple databases and adaptation to database evolution this work also serves as a practical study of the issues involved in the various stages of database transformation. We show that transformation from the ASN.1 data model to a relational data model can be largely automated, but that schema transformation and data conversion require considerable domain expertise and would greatly benefit from additional support tools.
A Model Based Mars Climate Database for the Mission Design

NASA Technical Reports Server (NTRS)

2005-01-01

A viewgraph presentation on a model based climate database is shown. The topics include: 1) Why a model based climate database?; 2) Mars Climate Database v3.1 Who uses it ? (approx. 60 users!); 3) The new Mars Climate database MCD v4.0; 4) MCD v4.0: what's new ? 5) Simulation of Water ice clouds; 6) Simulation of Water ice cycle; 7) A new tool for surface pressure prediction; 8) Acces to the database MCD 4.0; 9) How to access the database; and 10) New web access
SorghumFDB: sorghum functional genomics database with multidimensional network analysis.

PubMed

Tian, Tian; You, Qi; Zhang, Liwei; Yi, Xin; Yan, Hengyu; Xu, Wenying; Su, Zhen

2016-01-01

Sorghum (Sorghum bicolor [L.] Moench) has excellent agronomic traits and biological properties, such as heat and drought-tolerance. It is a C4 grass and potential bioenergy-producing plant, which makes it an important crop worldwide. With the sorghum genome sequence released, it is essential to establish a sorghum functional genomics data mining platform. We collected genomic data and some functional annotations to construct a sorghum functional genomics database (SorghumFDB). SorghumFDB integrated knowledge of sorghum gene family classifications (transcription regulators/factors, carbohydrate-active enzymes, protein kinases, ubiquitins, cytochrome P450, monolignol biosynthesis related enzymes, R-genes and organelle-genes), detailed gene annotations, miRNA and target gene information, orthologous pairs in the model plants Arabidopsis, rice and maize, gene loci conversions and a genome browser. We further constructed a dynamic network of multidimensional biological relationships, comprised of the co-expression data, protein-protein interactions and miRNA-target pairs. We took effective measures to combine the network, gene set enrichment and motif analyses to determine the key regulators that participate in related metabolic pathways, such as the lignin pathway, which is a major biological process in bioenergy-producing plants.Database URL: http://structuralbiology.cau.edu.cn/sorghum/index.html. © The Author(s) 2016. Published by Oxford University Press.

Using Landsat imagery to detect, monitor, and project net landscape change

USGS Publications Warehouse

Reker, Ryan R.; Sohl, Terry L.; Gallant, Alisa L.

2015-01-01

Detailed landscape information is a necessary component to bird habitat conservation planning. The U.S. Geological Survey (USGS) Earth Resources Observation and Science (EROS) Center has been providing information on the Earth’s surface for over 40 years via the continuous series of Landsat satellites. In addition to operating, processing, and disseminating satellite images, EROS is the home to nationwide and global landscape mapping, monitoring, and projection products, including:National Land Cover Database (NLCD) – the definitive land cover dataset for the U.S., with updates occurring at five-year intervals;Global Land Cover Monitoring – producing 30m resolution global land cover;LANDFIRE – Landscape Fire and Resource Management Planning Tools–EROS is a partner in this joint program between U.S. Department of Agriculture and Department of Interior that produces consistent, comprehensive, geospatial data and databases that describe vegetation, wildland fuel, and fire regimes across the U.S.;Land Cover Trends – a landscape monitoring and assessment effort to understand the rates, trends, causes, and consequences of contemporary U.S. land use and land cover change; andLand Use and Land Cover (LULC) Modeling – a project extending contemporary databases of landscape change forward and backward in time through moderate-resolution land cover projections.
Synthesis of Common Arabic Handwritings to Aid Optical Character Recognition Research.

PubMed

Dinges, Laslo; Al-Hamadi, Ayoub; Elzobi, Moftah; El-Etriby, Sherif

2016-03-11

Document analysis tasks such as pattern recognition, word spotting or segmentation, require comprehensive databases for training and validation. Not only variations in writing style but also the used list of words is of importance in the case that training samples should reflect the input of a specific area of application. However, generation of training samples is expensive in the sense of manpower and time, particularly if complete text pages including complex ground truth are required. This is why there is a lack of such databases, especially for Arabic, the second most popular language. However, Arabic handwriting recognition involves different preprocessing, segmentation and recognition methods. Each requires particular ground truth or samples to enable optimal training and validation, which are often not covered by the currently available databases. To overcome this issue, we propose a system that synthesizes Arabic handwritten words and text pages and generates corresponding detailed ground truth. We use these syntheses to validate a new, segmentation based system that recognizes handwritten Arabic words. We found that a modification of an Active Shape Model based character classifiers-that we proposed earlier-improves the word recognition accuracy. Further improvements are achieved, by using a vocabulary of the 50,000 most common Arabic words for error correction.
Synthesis of Common Arabic Handwritings to Aid Optical Character Recognition Research

PubMed Central

Dinges, Laslo; Al-Hamadi, Ayoub; Elzobi, Moftah; El-etriby, Sherif

2016-01-01

Document analysis tasks such as pattern recognition, word spotting or segmentation, require comprehensive databases for training and validation. Not only variations in writing style but also the used list of words is of importance in the case that training samples should reflect the input of a specific area of application. However, generation of training samples is expensive in the sense of manpower and time, particularly if complete text pages including complex ground truth are required. This is why there is a lack of such databases, especially for Arabic, the second most popular language. However, Arabic handwriting recognition involves different preprocessing, segmentation and recognition methods. Each requires particular ground truth or samples to enable optimal training and validation, which are often not covered by the currently available databases. To overcome this issue, we propose a system that synthesizes Arabic handwritten words and text pages and generates corresponding detailed ground truth. We use these syntheses to validate a new, segmentation based system that recognizes handwritten Arabic words. We found that a modification of an Active Shape Model based character classifiers—that we proposed earlier—improves the word recognition accuracy. Further improvements are achieved, by using a vocabulary of the 50,000 most common Arabic words for error correction. PMID:26978368
UUCD: a family-based database of ubiquitin and ubiquitin-like conjugation.

PubMed

Gao, Tianshun; Liu, Zexian; Wang, Yongbo; Cheng, Han; Yang, Qing; Guo, Anyuan; Ren, Jian; Xue, Yu

2013-01-01

In this work, we developed a family-based database of UUCD (http://uucd.biocuckoo.org) for ubiquitin and ubiquitin-like conjugation, which is one of the most important post-translational modifications responsible for regulating a variety of cellular processes, through a similar E1 (ubiquitin-activating enzyme)-E2 (ubiquitin-conjugating enzyme)-E3 (ubiquitin-protein ligase) enzyme thioester cascade. Although extensive experimental efforts have been taken, an integrative data resource is still not available. From the scientific literature, 26 E1s, 105 E2s, 1003 E3s and 148 deubiquitination enzymes (DUBs) were collected and classified into 1, 3, 19 and 7 families, respectively. To computationally characterize potential enzymes in eukaryotes, we constructed 1, 1, 15 and 6 hidden Markov model (HMM) profiles for E1s, E2s, E3s and DUBs at the family level, separately. Moreover, the ortholog searches were conducted for E3 and DUB families without HMM profiles. Then the UUCD database was developed with 738 E1s, 2937 E2s, 46 631 E3s and 6647 DUBs of 70 eukaryotic species. The detailed annotations and classifications were also provided. The online service of UUCD was implemented in PHP + MySQL + JavaScript + Perl.
The European Southern Observatory-MIDAS table file system

NASA Technical Reports Server (NTRS)

Peron, M.; Grosbol, P.

1992-01-01

The new and substantially upgraded version of the Table File System in MIDAS is presented as a scientific database system. MIDAS applications for performing database operations on tables are discussed, for instance, the exchange of the data to and from the TFS, the selection of objects, the uncertainty joins across tables, and the graphical representation of data. This upgraded version of the TFS is a full implementation of the binary table extension of the FITS format; in addition, it also supports arrays of strings. Different storage strategies for optimal access of very large data sets are implemented and are addressed in detail. As a simple relational database, the TFS may be used for the management of personal data files. This opens the way to intelligent pipeline processing of large amounts of data. One of the key features of the Table File System is to provide also an extensive set of tools for the analysis of the final results of a reduction process. Column operations using standard and special mathematical functions as well as statistical distributions can be carried out; commands for linear regression and model fitting using nonlinear least square methods and user-defined functions are available. Finally, statistical tests of hypothesis and multivariate methods can also operate on tables.
A Practical Guide to Interpretation of Large Collections of Incident Narratives Using the QUORUM Method

NASA Technical Reports Server (NTRS)

McGreevy, Michael W.

1997-01-01

Analysis of incident reports plays an important role in aviation safety. Typically, a narrative description, written by a participant, is a central part of an incident report. Because there are so many reports, and the narratives contain so much detail, it can be difficult to efficiently and effectively recognize patterns among them. Recognizing and addressing recurring problems, however, is vital to continuing safety in commercial aviation operations. A practical way to interpret large collections of incident narratives is to apply the QUORUM method of text analysis, modeling, and relevance ranking. In this paper, QUORUM text analysis and modeling are surveyed, and QUORUM relevance ranking is described in detail with many examples. The examples are based on several large collections of reports from the Aviation Safety Reporting System (ASRS) database, and a collection of news stories describing the disaster of TWA Flight 800, the Boeing 747 which exploded in mid- air and crashed near Long Island, New York, on July 17, 1996. Reader familiarity with this disaster should make the relevance-ranking examples more understandable. The ASRS examples illustrate the practical application of QUORUM relevance ranking.
Databases for multilevel biophysiology research available at Physiome.jp.

PubMed

Asai, Yoshiyuki; Abe, Takeshi; Li, Li; Oka, Hideki; Nomura, Taishin; Kitano, Hiroaki

2015-01-01

Physiome.jp (http://physiome.jp) is a portal site inaugurated in 2007 to support model-based research in physiome and systems biology. At Physiome.jp, several tools and databases are available to support construction of physiological, multi-hierarchical, large-scale models. There are three databases in Physiome.jp, housing mathematical models, morphological data, and time-series data. In late 2013, the site was fully renovated, and in May 2015, new functions were implemented to provide information infrastructure to support collaborative activities for developing models and performing simulations within the database framework. This article describes updates to the databases implemented since 2013, including cooperation among the three databases, interactive model browsing, user management, version management of models, management of parameter sets, and interoperability with applications.
CHAD-Master

EPA Pesticide Factsheets

Detailed data on human behavior from 19 studies has been compiled into the Consolidated Human Activity Database (CHAD) , enabling researchers to examine specific population groups for unique activity patterns that influence overall exposure to chemicals.
CHAD-2000

EPA Pesticide Factsheets

Detailed data on human behavior from 19 studies has been compiled into the Consolidated Human Activity Database (CHAD), enabling researchers to examine specific population groups for unique activity patterns that influence overall exposure to chemicals.
Urban amplification of the global warming in Moscow megacity

NASA Astrophysics Data System (ADS)

Kislov, Alexander; Konstantinov, Pavel; Varentsov, Mikhail; Samsonov, Timofey; Gorlach, Irina; Trusilova, Kristina

2015-04-01

Climate changes in the large cities are very important and requires better understanding. The focus of this paper is climate change of the Moscow megacity. Its urban features strongly influence the atmospheric boundary layer above the Moscow agglomeration area and determine the microclimatic features of the local environment, such as urban heat island (UHI). Available meteorological observations within the Moscow urban area and surrounding territory allow us to assess the natural climate variations and human-induced climate warming separately. To obtain more precisely viewing on the UHI structure we have included into the analysis the satellite data (Meteosat-10), providing temperature and humidity profiles with high resolution. To investigate the mechanism of the urban amplification we realized the regional climate model COSMO-CLM+TEB. Apart from detailed climate research the model runs will be planned for climate projecting of Moscow agglomeration area. Climate change differences between urban and rural areas are determined by changes of the shape of the UHI and their relationships with changes of building height and density. Therefore, the urban module of COSMO-CLM+TEB model is fed by information from special GIS database contenting both geometric characteristics of the urban canyons and other characteristics of the urban surface. The sources of information were maps belonging to the OpenStreetMap, and digital elevation models SRTM90 and ASTER GDEM v.2 as well. The multiscale GIS database allows us to generate such kind of information with different spatial resolution (200, 500 and 1000 meters).
Development of a Numerical Model for High-Temperature Shape Memory Alloys

NASA Technical Reports Server (NTRS)

DeCastro, Jonathan A.; Melcher, Kevin J.; Noebe, Ronald D.; Gaydosh, Darrell J.

2006-01-01

A thermomechanical hysteresis model for a high-temperature shape memory alloy (HTSMA) actuator material is presented. The model is capable of predicting strain output of a tensile-loaded HTSMA when excited by arbitrary temperature-stress inputs for the purpose of actuator and controls design. Common quasi-static generalized Preisach hysteresis models available in the literature require large sets of experimental data for model identification at a particular operating point, and substantially more data for multiple operating points. The novel algorithm introduced here proposes an alternate approach to Preisach methods that is better suited for research-stage alloys, such as recently-developed HTSMAs, for which a complete database is not yet available. A detailed description of the minor loop hysteresis model is presented in this paper, as well as a methodology for determination of model parameters. The model is then qualitatively evaluated with respect to well-established Preisach properties and against a set of low-temperature cycled loading data using a modified form of the one-dimensional Brinson constitutive equation. The computationally efficient algorithm demonstrates adherence to Preisach properties and excellent agreement to the validation data set.
Rapid production of optimal-quality reduced-resolution representations of very large databases

DOEpatents

Sigeti, David E.; Duchaineau, Mark; Miller, Mark C.; Wolinsky, Murray; Aldrich, Charles; Mineev-Weinstein, Mark B.

2001-01-01

View space representation data is produced in real time from a world space database representing terrain features. The world space database is first preprocessed. A database is formed having one element for each spatial region corresponding to a finest selected level of detail. A multiresolution database is then formed by merging elements and a strict error metric is computed for each element at each level of detail that is independent of parameters defining the view space. The multiresolution database and associated strict error metrics are then processed in real time for real time frame representations. View parameters for a view volume comprising a view location and field of view are selected. The error metric with the view parameters is converted to a view-dependent error metric. Elements with the coarsest resolution are chosen for an initial representation. Data set first elements from the initial representation data set are selected that are at least partially within the view volume. The first elements are placed in a split queue ordered by the value of the view-dependent error metric. If the number of first elements in the queue meets or exceeds a predetermined number of elements or whether the largest error metric is less than or equal to a selected upper error metric bound, the element at the head of the queue is force split and the resulting elements are inserted into the queue. Force splitting is continued until the determination is positive to form a first multiresolution set of elements. The first multiresolution set of elements is then outputted as reduced resolution view space data representing the terrain features.
Multi -risk assessment at a national level in Georgia

NASA Astrophysics Data System (ADS)

Tsereteli, Nino; Varazanashvili, Otar; Amiranashvili, Avtandil; Tsereteli, Emili; Elizbarashvili, Elizbar; Saluqvadze, Manana; Dolodze, Jemal

2013-04-01

Work presented here was initiated by national GNSF project " Reducing natural disasters multiple risk: a positive factor for Georgia development " and two international projects: NATO SFP 983038 "Seismic hazard and Rusk assessment for Southern Caucasus-eastern Turkey Energy Corridors" and EMME " Earthquake Model for Middle east Region". Methodology for estimation of "general" vulnerability, hazards and multiple risk to natural hazards (namely, earthquakes, landslides, snow avalanches, flash floods, mudflows, drought, hurricanes, frost, hail) where developed for Georgia. The electronic detailed databases of natural disasters were created. These databases contain the parameters of hazardous phenomena that caused natural disasters. The magnitude and intensity scale of the mentioned disasters are reviewed and the new magnitude and intensity scales are suggested for disasters for which the corresponding formalization is not yet performed. The associated economic losses were evaluated and presented in monetary terms for these hazards. Based on the hazard inventory, an approach was developed that allowed for the calculation of an overall vulnerability value for each individual hazard type, using the Gross Domestic Product per unit area (applied to population) as the indicator for elements at risk exposed. The correlation between estimated economic losses, physical exposure and the magnitude for each of the six types of hazards has been investigated in detail by using multiple linear regression analysis. Economic losses for all past events and historical vulnerability were estimated. Finally, the spatial distribution of general vulnerability was assessed, and the expected maximum economic loss was calculated as well as a multi-risk map was set-up.
EPA GHG Certification of Medium- and Heavy-Duty Vehicles: Development of Road Grade Profiles Representative of US Controlled Access Highways

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wood, Eric; Duran, Adam; Burton, Evan

This report includes a detailed comparison of the TomTom national road grade database relative to a local road grade dataset generated by Southwest Research Institute and a national elevation dataset publically available from the U.S. Geological Survey. This analysis concluded that the TomTom national road grade database was a suitable source of road grade data for purposes of this study.
Establishment of an international database for genetic variants in esophageal cancer.

PubMed

Vihinen, Mauno

2016-10-01

The establishment of a database has been suggested in order to collect, organize, and distribute genetic information about esophageal cancer. The World Organization for Specialized Studies on Diseases of the Esophagus and the Human Variome Project will be in charge of a central database of information about esophageal cancer-related variations from publications, databases, and laboratories; in addition to genetic details, clinical parameters will also be included. The aim will be to get all the central players in research, clinical, and commercial laboratories to contribute. The database will follow established recommendations and guidelines. The database will require a team of dedicated curators with different backgrounds. Numerous layers of systematics will be applied to facilitate computational analyses. The data items will be extensively integrated with other information sources. The database will be distributed as open access to ensure exchange of the data with other databases. Variations will be reported in relation to reference sequences on three levels--DNA, RNA, and protein-whenever applicable. In the first phase, the database will concentrate on genetic variations including both somatic and germline variations for susceptibility genes. Additional types of information can be integrated at a later stage. © 2016 New York Academy of Sciences.
Inter-University Upper Atmosphere Global Observation Network (IUGONET) Metadata Database and Its Interoperability

NASA Astrophysics Data System (ADS)

Yatagai, A. I.; Iyemori, T.; Ritschel, B.; Koyama, Y.; Hori, T.; Abe, S.; Tanaka, Y.; Shinbori, A.; Umemura, N.; Sato, Y.; Yagi, M.; Ueno, S.; Hashiguchi, N. O.; Kaneda, N.; Belehaki, A.; Hapgood, M. A.

2013-12-01

The IUGONET is a Japanese program to build a metadata database for ground-based observations of the upper atmosphere [1]. The project began in 2009 with five Japanese institutions which archive data observed by radars, magnetometers, photometers, radio telescopes and helioscopes, and so on, at various altitudes from the Earth's surface to the Sun. Systems have been developed to allow searching of the above described metadata. We have been updating the system and adding new and updated metadata. The IUGONET development team adopted the SPASE metadata model [2] to describe the upper atmosphere data. This model is used as the common metadata format by the virtual observatories for solar-terrestrial physics. It includes metadata referring to each data file (called a 'Granule'), which enable a search for data files as well as data sets. Further details are described in [2] and [3]. Currently, three additional Japanese institutions are being incorporated in IUGONET. Furthermore, metadata of observations of the troposphere, taken at the observatories of the middle and upper atmosphere radar at Shigaraki and the Meteor radar in Indonesia, have been incorporated. These additions will contribute to efficient interdisciplinary scientific research. In the beginning of 2013, the registration of the 'Observatory' and 'Instrument' metadata was completed, which makes it easy to overview of the metadata database. The number of registered metadata as of the end of July, totalled 8.8 million, including 793 observatories and 878 instruments. It is important to promote interoperability and/or metadata exchange between the database development groups. A memorandum of agreement has been signed with the European Near-Earth Space Data Infrastructure for e-Science (ESPAS) project, which has similar objectives to IUGONET with regard to a framework for formal collaboration. Furthermore, observations by satellites and the International Space Station are being incorporated with a view for making/linking metadata databases. The development of effective data systems will contribute to the progress of scientific research on solar terrestrial physics, climate and the geophysical environment. Any kind of cooperation, metadata input and feedback, especially for linkage of the databases, is welcomed. References 1. Hayashi, H. et al., Inter-university Upper Atmosphere Global Observation Network (IUGONET), Data Sci. J., 12, WDS179-184, 2013. 2. King, T. et al., SPASE 2.0: A standard data model for space physics. Earth Sci. Inform. 3, 67-73, 2010, doi:10.1007/s12145-010-0053-4. 3. Hori, T., et al., Development of IUGONET metadata format and metadata management system. J. Space Sci. Info. Jpn., 105-111, 2012. (in Japanese)
Improved Mars Upper Atmosphere Climatology

NASA Technical Reports Server (NTRS)

Bougher, S. W.

2004-01-01

The detailed characterization of the Mars upper atmosphere is important for future Mars aerobraking activities. Solar cycle, seasonal, and dust trends (climate) as well as planetary wave activity (weather) are crucial to quantify in order to improve our ability to reasonably depict the state of the Mars upper atmosphere over time. To date, our best information is found in the Mars Global Surveyor (MGS) Accelerometer (ACC) database collected during Phase 1 (Ls = 184 - 300; F10.7 = 70 - 90) and Phase 2 (Ls = 30 - 90; F10.7 = 90 - 150) of aerobraking. This database (100 - 170 km) consists of thermospheric densities, temperatures, and scale heights, providing our best constraints for exercising the coupled Mars General Circulation Model (MGCM) and the Mars Thermospheric General Circulation Model (MTGCM). The Planetary Data System (PDS) contains level 0 and 2 MGS Accelerometer data, corresponding to atmospheric densities along the orbit track. Level 3 products (densities, temperatures, and scale heights at constant altitudes) are also available in the PDS. These datasets provide the primary model constraints for the new MGCM-MTGCM simulations summarized in this report. Our strategy for improving the characterization of the Mars upper atmospheres using these models has been three-fold : (a) to conduct data-model comparisons using the latest MGS data covering limited climatic and weather conditions at Mars, (b) to upgrade the 15-micron cooling and near-IR heating rates in the MGCM and MTGCM codes for ad- dressing climatic variations (solar cycle and seasonal) important in linking the lower and upper atmospheres (including migrating tides), and (c) to exercise the detailed coupled MGCM and MTGCM codes to capture and diagnose the planetary wave (migrating plus non-migrating tidal) features throughout the Mars year. Products from this new suite of MGCM-MTGCM coupled simulations are being used to improve our predictions of the structure of the Mars upper atmosphere for the upcoming MRO aerobraking exercises in 2006. A Michigan website, containing MTGCM output fields from previous climate simulations, is being expanded to include new MGCM-MTGCM simulations addressing planetary wave influences upon thermospheric aerobraking fields (densities and temperatures). In addition, similar MTGCM output fields have been supplied to the MSFC MARSGRAM - 200X empirical model, which will be used in mission operations for conducting aerobraking maneuvers.
BioSharing: curated and crowd-sourced metadata standards, databases and data policies in the life sciences.

PubMed

McQuilton, Peter; Gonzalez-Beltran, Alejandra; Rocca-Serra, Philippe; Thurston, Milo; Lister, Allyson; Maguire, Eamonn; Sansone, Susanna-Assunta

2016-01-01

BioSharing (http://www.biosharing.org) is a manually curated, searchable portal of three linked registries. These resources cover standards (terminologies, formats and models, and reporting guidelines), databases, and data policies in the life sciences, broadly encompassing the biological, environmental and biomedical sciences. Launched in 2011 and built by the same core team as the successful MIBBI portal, BioSharing harnesses community curation to collate and cross-reference resources across the life sciences from around the world. BioSharing makes these resources findable and accessible (the core of the FAIR principle). Every record is designed to be interlinked, providing a detailed description not only on the resource itself, but also on its relations with other life science infrastructures. Serving a variety of stakeholders, BioSharing cultivates a growing community, to which it offers diverse benefits. It is a resource for funding bodies and journal publishers to navigate the metadata landscape of the biological sciences; an educational resource for librarians and information advisors; a publicising platform for standard and database developers/curators; and a research tool for bench and computer scientists to plan their work. BioSharing is working with an increasing number of journals and other registries, for example linking standards and databases to training material and tools. Driven by an international Advisory Board, the BioSharing user-base has grown by over 40% (by unique IP address), in the last year thanks to successful engagement with researchers, publishers, librarians, developers and other stakeholders via several routes, including a joint RDA/Force11 working group and a collaboration with the International Society for Biocuration. In this article, we describe BioSharing, with a particular focus on community-led curation.Database URL: https://www.biosharing.org. © The Author(s) 2016. Published by Oxford University Press.
CARINA data synthesis project: pH data scale unification and cruise adjustments

NASA Astrophysics Data System (ADS)

Velo, A.; Pérez, F. F.; Lin, X.; Key, R. M.; Tanhua, T.; de La Paz, M.; van Heuven, S.; Jutterström, S.; Ríos, A. F.

2009-10-01

Data on carbon and carbon-relevant hydrographic and hydrochemical parameters from previously non-publicly available cruise data sets in the Artic Mediterranean Seas (AMS), Atlantic and Southern Ocean have been retrieved and merged to a new database: CARINA (CARbon IN the Atlantic). These data have gone through rigorous quality control (QC) procedures to assure the highest possible quality and consistency. The data for most of the measured parameters in the CARINA database were objectively examined in order to quantify systematic differences in the reported values, i.e. secondary quality control. Systematic biases found in the data have been corrected in the data products, i.e. three merged data files with measured, calculated and interpolated data for each of the three CARINA regions; AMS, Atlantic and Southern Ocean. Out of a total of 188 cruise entries in the CARINA database, 59 reported pH measured values. Here we present details of the secondary QC on pH for the CARINA database. Procedures of quality control, including crossover analysis between cruises and inversion analysis of all crossover data are briefly described. Adjustments were applied to the pH values for 21 of the cruises in the CARINA dataset. With these adjustments the CARINA database is consistent both internally as well as with GLODAP data, an oceanographic data set based on the World Hydrographic Program in the 1990s. Based on our analysis we estimate the internal accuracy of the CARINA pH data to be 0.005 pH units. The CARINA data are now suitable for accurate assessments of, for example, oceanic carbon inventories and uptake rates and for model validation.
Computing biological functions using BioΨ, a formal description of biological processes based on elementary bricks of actions

PubMed Central

Pérès, Sabine; Felicori, Liza; Rialle, Stéphanie; Jobard, Elodie; Molina, Franck

2010-01-01

Motivation: In the available databases, biological processes are described from molecular and cellular points of view, but these descriptions are represented with text annotations that make it difficult to handle them for computation. Consequently, there is an obvious need for formal descriptions of biological processes. Results: We present a formalism that uses the BioΨ concepts to model biological processes from molecular details to networks. This computational approach, based on elementary bricks of actions, allows us to calculate on biological functions (e.g. process comparison, mapping structure–function relationships, etc.). We illustrate its application with two examples: the functional comparison of proteases and the functional description of the glycolysis network. This computational approach is compatible with detailed biological knowledge and can be applied to different kinds of systems of simulation. Availability: www.sysdiag.cnrs.fr/publications/supplementary-materials/BioPsi_Manager/ Contact: sabine.peres@sysdiag.cnrs.fr; franck.molina@sysdiag.cnrs.fr Supplementary information: Supplementary data are available at Bioinformatics online. PMID:20448138

Generating Neuron Geometries for Detailed Three-Dimensional Simulations Using AnaMorph.

PubMed

Mörschel, Konstantin; Breit, Markus; Queisser, Gillian

2017-07-01

Generating realistic and complex computational domains for numerical simulations is often a challenging task. In neuroscientific research, more and more one-dimensional morphology data is becoming publicly available through databases. This data, however, only contains point and diameter information not suitable for detailed three-dimensional simulations. In this paper, we present a novel framework, AnaMorph, that automatically generates water-tight surface meshes from one-dimensional point-diameter files. These surface triangulations can be used to simulate the electrical and biochemical behavior of the underlying cell. In addition to morphology generation, AnaMorph also performs quality control of the semi-automatically reconstructed cells coming from anatomical reconstructions. This toolset allows an extension from the classical dimension-reduced modeling and simulation of cellular processes to a full three-dimensional and morphology-including method, leading to novel structure-function interplay studies in the medical field. The developed numerical methods can further be employed in other areas where complex geometries are an essential component of numerical simulations.
A method for identifying EMI critical circuits during development of a large C3

NASA Astrophysics Data System (ADS)

Barr, Douglas H.

The circuit analysis methods and process Boeing Aerospace used on a large, ground-based military command, control, and communications (C3) system are described. This analysis was designed to help identify electromagnetic interference (EMI) critical circuits. The methodology used the MIL-E-6051 equipment criticality categories as the basis for defining critical circuits, relational database technology to help sort through and account for all of the approximately 5000 system signal cables, and Macintosh Plus personal computers to predict critical circuits based on safety margin analysis. The EMI circuit analysis process systematically examined all system circuits to identify which ones were likely to be EMI critical. The process used two separate, sequential safety margin analyses to identify critical circuits (conservative safety margin analysis, and detailed safety margin analysis). These analyses used field-to-wire and wire-to-wire coupling models using both worst-case and detailed circuit parameters (physical and electrical) to predict circuit safety margins. This process identified the predicted critical circuits that could then be verified by test.
Time-Critical Database Conditions Data-Handling for the CMS Experiment

NASA Astrophysics Data System (ADS)

De Gruttola, Michele; Di Guida, Salvatore; Innocente, Vincenzo; Pierro, Antonio

2011-08-01

Automatic, synchronous and of course reliable population of the condition database is critical for the correct operation of the online selection as well as of the offline reconstruction and data analysis. We will describe here the system put in place in the CMS experiment to automate the processes to populate centrally the database and make condition data promptly available both online for the high-level trigger and offline for reconstruction. The data are “dropped” by the users in a dedicated service which synchronizes them and takes care of writing them into the online database. Then they are automatically streamed to the offline database, hence immediately accessible offline worldwide. This mechanism was intensively used during 2008 and 2009 operation with cosmic ray challenges and first LHC collision data, and many improvements were done so far. The experience of this first years of operation will be discussed in detail.
Insect barcode information system.

PubMed

Pratheepa, Maria; Jalali, Sushil Kumar; Arokiaraj, Robinson Silvester; Venkatesan, Thiruvengadam; Nagesh, Mandadi; Panda, Madhusmita; Pattar, Sharath

2014-01-01

Insect Barcode Information System called as Insect Barcode Informática (IBIn) is an online database resource developed by the National Bureau of Agriculturally Important Insects, Bangalore. This database provides acquisition, storage, analysis and publication of DNA barcode records of agriculturally important insects, for researchers specifically in India and other countries. It bridges a gap in bioinformatics by integrating molecular, morphological and distribution details of agriculturally important insects. IBIn was developed using PHP/My SQL by using relational database management concept. This database is based on the client- server architecture, where many clients can access data simultaneously. IBIn is freely available on-line and is user-friendly. IBIn allows the registered users to input new information, search and view information related to DNA barcode of agriculturally important insects.This paper provides a current status of insect barcode in India and brief introduction about the database IBIn. http://www.nabg-nbaii.res.in/barcode.
The Unified Database for BM@N experiment data handling

NASA Astrophysics Data System (ADS)

Gertsenberger, Konstantin; Rogachevsky, Oleg

2018-04-01

The article describes the developed Unified Database designed as a comprehensive relational data storage for the BM@N experiment at the Joint Institute for Nuclear Research in Dubna. The BM@N experiment, which is one of the main elements of the first stage of the NICA project, is a fixed target experiment at extracted Nuclotron beams of the Laboratory of High Energy Physics (LHEP JINR). The structure and purposes of the BM@N setup are briefly presented. The article considers the scheme of the Unified Database, its attributes and implemented features in detail. The use of the developed BM@N database provides correct multi-user access to actual information of the experiment for data processing. It stores information on the experiment runs, detectors and their geometries, different configuration, calibration and algorithm parameters used in offline data processing. An important part of any database - user interfaces are presented.
Development of Elevation and Relief Databases for ICESat-2/ATLAS Receiver Algorithms

NASA Astrophysics Data System (ADS)

Leigh, H. W.; Magruder, L. A.; Carabajal, C. C.; Saba, J. L.; Urban, T. J.; Mcgarry, J.; Schutz, B. E.

2013-12-01

The Advanced Topographic Laser Altimeter System (ATLAS) is planned to launch onboard NASA's ICESat-2 spacecraft in 2016. ATLAS operates at a wavelength of 532 nm with a laser repeat rate of 10 kHz and 6 individual laser footprints. The satellite will be in a 500 km, 91-day repeat ground track orbit at an inclination of 92°. A set of onboard Receiver Algorithms has been developed to reduce the data volume and data rate to acceptable levels while still transmitting the relevant ranging data. The onboard algorithms limit the data volume by distinguishing between surface returns and background noise and selecting a small vertical region around the surface return to be included in telemetry. The algorithms make use of signal processing techniques, along with three databases, the Digital Elevation Model (DEM), the Digital Relief Map (DRM), and the Surface Reference Mask (SRM), to find the signal and determine the appropriate dynamic range of vertical data surrounding the surface for downlink. The DEM provides software-based range gating for ATLAS. This approach allows the algorithm to limit the surface signal search to the vertical region between minimum and maximum elevations provided by the DEM (plus some margin to account for uncertainties). The DEM is constructed in a nested, three-tiered grid to account for a hardware constraint limiting the maximum vertical range to 6 km. The DRM is used to select the vertical width of the telemetry band around the surface return. The DRM contains global values of relief calculated along 140 m and 700 m ground track segments consistent with a 92° orbit. The DRM must contain the maximum value of relief seen in any given area, but must be as close to truth as possible as the DRM directly affects data volume. The SRM, which has been developed independently from the DEM and DRM, is used to set parameters within the algorithm and select telemetry bands for downlink. Both the DEM and DRM are constructed from publicly available digital elevation models. No elevation models currently exist that provide global coverage at a sufficient resolution, so several regional models have been mosaicked together to produce global databases. In locations where multiple data sets are available, evaluations have been made to determine the optimal source for the databases, primarily based on resolution and accuracy. Separate procedures for calculating relief were developed for high latitude (>60N/S) regions in order to take advantage of polar stereographic projections. An additional method for generating the databases was developed for use over Antarctica, such that high resolution, regional elevation models can be easily incorporated as they become available in the future. The SRM is used to facilitate DEM and DRM production by defining those regions that are ocean and sea ice. Ocean and sea ice elevation values are defined by the geoid, while relief is set to a constant value. Results presented will include the details of data source selection, the methodologies used to create the databases, and the final versions of both the DEM and DRM databases. Companion presentations by McGarry, et al. and Carabajal, et al. describe the ATLAS onboard Receiver Algorithms and the database verification, respectively.
Canada in 3D - Toward a Sustainable 3D Model for Canadian Geology from Diverse Data Sources

NASA Astrophysics Data System (ADS)

Brodaric, B.; Pilkington, M.; Snyder, D. B.; St-Onge, M. R.; Russell, H.

2015-12-01

Many big science issues span large areas and require data from multiple heterogeneous sources, for example climate change, resource management, and hazard mitigation. Solutions to these issues can significantly benefit from access to a consistent and integrated geological model that would serve as a framework. However, such a model is absent for most large countries including Canada, due to the size of the landmass and the fragmentation of the source data into institutional and disciplinary silos. To overcome these barriers, the "Canada in 3D" (C3D) pilot project was recently launched by the Geological Survey of Canada. C3D is designed to be evergreen, multi-resolution, and inter-disciplinary: (a) it is to be updated regularly upon acquisition of new data; (b) portions vary in resolution and will initially consist of four layers (surficial, sedimentary, crystalline, and mantle) with intermediary patches of higher-resolution fill; and (c) a variety of independently managed data sources are providing inputs, such as geophysical, 3D and 2D geological models, drill logs, and others. Notably, scalability concerns dictate a decentralized and interoperable approach, such that only key control objects, denoting anchors for the modeling process, are imported into the C3D database while retaining provenance links to original sources. The resultant model is managed in the database, contains full modeling provenance as well as links to detailed information on rock units, and is to be visualized in desktop and online environments. It is anticipated that C3D will become the authoritative state of knowledge for the geology of Canada at a national scale.
Privacy considerations in the context of an Australian observational database.

PubMed

Duszynski, K M; Beilby, J J; Marley, J E; Walker, D C; Pratt, N L

2001-12-01

Observational databases are increasingly acknowledged for their value in clinical investigation. Australian general practice in particular presents an exciting opportunity to examine treatment in a natural setting. The paper explores issues such as privacy and confidentiality--foremost considerations when conducting this form of pharmacoepidemiological research. Australian legislation is currently addressing these exact issues in order to establish clear directives regarding ethical concerns. The development of a pharmacoepidemiological database arising from the integration of computerized Australian general practice records is described in addition, to the challenges associated with creating a database which considers patient privacy. The database known as 'Medic-GP', presently contains more than 950,000 clinical notes (including consultations, pathology, diagnostic imaging and adverse reactions) over a 5-year time period and relates to 55,000 patients. The paper then details a retrospective study which utilized the database to examine the interaction between antibiotic prescribing and patient outcomes from a community perspective, following a policy intervention. This study illustrates the application of computerized general practice records in research.
A Web-based Tool for SDSS and 2MASS Database Searches

NASA Astrophysics Data System (ADS)

Hendrickson, M. A.; Uomoto, A.; Golimowski, D. A.

We have developed a web site using HTML, Php, Python, and MySQL that extracts, processes, and displays data from the Sloan Digital Sky Survey (SDSS) and the Two-Micron All-Sky Survey (2MASS). The goal is to locate brown dwarf candidates in the SDSS database by looking at color cuts; however, this site could also be useful for targeted searches of other databases as well. MySQL databases are created from broad searches of SDSS and 2MASS data. Broad queries on the SDSS and 2MASS database servers are run weekly so that observers have the most up-to-date information from which to select candidates for observation. Observers can look at detailed information about specific objects including finding charts, images, and available spectra. In addition, updates from previous observations can be added by any collaborators; this format makes observational collaboration simple. Observers can also restrict the database search, just before or during an observing run, to select objects of special interest.
The PMDB Protein Model Database

PubMed Central

Castrignanò, Tiziana; De Meo, Paolo D'Onorio; Cozzetto, Domenico; Talamo, Ivano Giuseppe; Tramontano, Anna

2006-01-01

The Protein Model Database (PMDB) is a public resource aimed at storing manually built 3D models of proteins. The database is designed to provide access to models published in the scientific literature, together with validating experimental data. It is a relational database and it currently contains >74 000 models for ∼240 proteins. The system is accessible at and allows predictors to submit models along with related supporting evidence and users to download them through a simple and intuitive interface. Users can navigate in the database and retrieve models referring to the same target protein or to different regions of the same protein. Each model is assigned a unique identifier that allows interested users to directly access the data. PMID:16381873
SAMMD: Staphylococcus aureus microarray meta-database.

PubMed

Nagarajan, Vijayaraj; Elasri, Mohamed O

2007-10-02

Staphylococcus aureus is an important human pathogen, causing a wide variety of diseases ranging from superficial skin infections to severe life threatening infections. S. aureus is one of the leading causes of nosocomial infections. Its ability to resist multiple antibiotics poses a growing public health problem. In order to understand the mechanism of pathogenesis of S. aureus, several global expression profiles have been developed. These transcriptional profiles included regulatory mutants of S. aureus and growth of wild type under different growth conditions. The abundance of these profiles has generated a large amount of data without a uniform annotation system to comprehensively examine them. We report the development of the Staphylococcus aureus Microarray meta-database (SAMMD) which includes data from all the published transcriptional profiles. SAMMD is a web-accessible database that helps users to perform a variety of analysis against and within the existing transcriptional profiles. SAMMD is a relational database that uses MySQL as the back end and PHP/JavaScript/DHTML as the front end. The database is normalized and consists of five tables, which holds information about gene annotations, regulated gene lists, experimental details, references, and other details. SAMMD data is collected from the peer-reviewed published articles. Data extraction and conversion was done using perl scripts while data entry was done through phpMyAdmin tool. The database is accessible via a web interface that contains several features such as a simple search by ORF ID, gene name, gene product name, advanced search using gene lists, comparing among datasets, browsing, downloading, statistics, and help. The database is licensed under General Public License (GPL). SAMMD is hosted and available at http://www.bioinformatics.org/sammd/. Currently there are over 9500 entries for regulated genes, from 67 microarray experiments. SAMMD will help staphylococcal scientists to analyze their expression data and understand it at global level. It will also allow scientists to compare and contrast their transcriptome to that of the other published transcriptomes.
SAMMD: Staphylococcus aureus Microarray Meta-Database

PubMed Central

Nagarajan, Vijayaraj; Elasri, Mohamed O

2007-01-01

Background Staphylococcus aureus is an important human pathogen, causing a wide variety of diseases ranging from superficial skin infections to severe life threatening infections. S. aureus is one of the leading causes of nosocomial infections. Its ability to resist multiple antibiotics poses a growing public health problem. In order to understand the mechanism of pathogenesis of S. aureus, several global expression profiles have been developed. These transcriptional profiles included regulatory mutants of S. aureus and growth of wild type under different growth conditions. The abundance of these profiles has generated a large amount of data without a uniform annotation system to comprehensively examine them. We report the development of the Staphylococcus aureus Microarray meta-database (SAMMD) which includes data from all the published transcriptional profiles. SAMMD is a web-accessible database that helps users to perform a variety of analysis against and within the existing transcriptional profiles. Description SAMMD is a relational database that uses MySQL as the back end and PHP/JavaScript/DHTML as the front end. The database is normalized and consists of five tables, which holds information about gene annotations, regulated gene lists, experimental details, references, and other details. SAMMD data is collected from the peer-reviewed published articles. Data extraction and conversion was done using perl scripts while data entry was done through phpMyAdmin tool. The database is accessible via a web interface that contains several features such as a simple search by ORF ID, gene name, gene product name, advanced search using gene lists, comparing among datasets, browsing, downloading, statistics, and help. The database is licensed under General Public License (GPL). Conclusion SAMMD is hosted and available at . Currently there are over 9500 entries for regulated genes, from 67 microarray experiments. SAMMD will help staphylococcal scientists to analyze their expression data and understand it at global level. It will also allow scientists to compare and contrast their transcriptome to that of the other published transcriptomes. PMID:17910768
RPG: the Ribosomal Protein Gene database.

PubMed

Nakao, Akihiro; Yoshihama, Maki; Kenmochi, Naoya

2004-01-01

RPG (http://ribosome.miyazaki-med.ac.jp/) is a new database that provides detailed information about ribosomal protein (RP) genes. It contains data from humans and other organisms, including Drosophila melanogaster, Caenorhabditis elegans, Saccharo myces cerevisiae, Methanococcus jannaschii and Escherichia coli. Users can search the database by gene name and organism. Each record includes sequences (genomic, cDNA and amino acid sequences), intron/exon structures, genomic locations and information about orthologs. In addition, users can view and compare the gene structures of the above organisms and make multiple amino acid sequence alignments. RPG also provides information on small nucleolar RNAs (snoRNAs) that are encoded in the introns of RP genes.
RPG: the Ribosomal Protein Gene database

PubMed Central

Nakao, Akihiro; Yoshihama, Maki; Kenmochi, Naoya

2004-01-01

RPG (http://ribosome.miyazaki-med.ac.jp/) is a new database that provides detailed information about ribosomal protein (RP) genes. It contains data from humans and other organisms, including Drosophila melanogaster, Caenorhabditis elegans, Saccharo myces cerevisiae, Methanococcus jannaschii and Escherichia coli. Users can search the database by gene name and organism. Each record includes sequences (genomic, cDNA and amino acid sequences), intron/exon structures, genomic locations and information about orthologs. In addition, users can view and compare the gene structures of the above organisms and make multiple amino acid sequence alignments. RPG also provides information on small nucleolar RNAs (snoRNAs) that are encoded in the introns of RP genes. PMID:14681386
[International bibliographic databases--Current Contents on disk and in FTP format (Internet): presentation and guide].

PubMed

Bloch-Mouillet, E

1999-01-01

This paper aims to provide technical and practical advice about finding references using Current Contents on disk (Macintosh or PC) or via the Internet (FTP). Seven editions are published each week. They are all organized in the same way and have the same search engine. The Life Sciences edition, extensively used in medical research, is presented here in detail, as an example. This methodological note explains, in French, how to use this reference database. It is designed to be a practical guide for browsing and searching the database, and particularly for creating search profiles adapted to the needs of researchers.
The JANA calibrations and conditions database API

NASA Astrophysics Data System (ADS)

Lawrence, David

2010-04-01

Calibrations and conditions databases can be accessed from within the JANA Event Processing framework through the API defined in its JCalibration base class. The API is designed to support everything from databases, to web services to flat files for the backend. A Web Service backend using the gSOAP toolkit has been implemented which is particularly interesting since it addresses many modern cybersecurity issues including support for SSL. The API allows constants to be retrieved through a single line of C++ code with most of the context, including the transport mechanism, being implied by the run currently being analyzed and the environment relieving developers from implementing such details.
An Integrated Optimization Design Method Based on Surrogate Modeling Applied to Diverging Duct Design

NASA Astrophysics Data System (ADS)

Hanan, Lu; Qiushi, Li; Shaobin, Li

2016-12-01

This paper presents an integrated optimization design method in which uniform design, response surface methodology and genetic algorithm are used in combination. In detail, uniform design is used to select the experimental sampling points in the experimental domain and the system performance is evaluated by means of computational fluid dynamics to construct a database. After that, response surface methodology is employed to generate a surrogate mathematical model relating the optimization objective and the design variables. Subsequently, genetic algorithm is adopted and applied to the surrogate model to acquire the optimal solution in the case of satisfying some constraints. The method has been applied to the optimization design of an axisymmetric diverging duct, dealing with three design variables including one qualitative variable and two quantitative variables. The method of modeling and optimization design performs well in improving the duct aerodynamic performance and can be also applied to wider fields of mechanical design and seen as a useful tool for engineering designers, by reducing the design time and computation consumption.
The study on the real estate integrated cadastral information system based on shared plots

NASA Astrophysics Data System (ADS)

Xu, Huan; Liu, Nan; Liu, Renyi; Huang, Jie

2008-10-01

Solving the problem of the land property right on the shared parcel demands the integration of real estate information into cadastral management. Therefore a new cadastral feature named Shared Plot is introduced. After defining the shared plot clearly and describing its characteristics in detail, the impact resulting from the new feature on the traditional cadastral model composed of three cadastral features - parcels, parcel boundary lines and parcel boundary points is focused on and a four feature cadastral model that makes some amendments to the three feature one is put forward. The new model has been applied to the development of a new generation of real estate integrated cadastral information system, which incorporates real estate attribute and spatial information into cadastral database in addition to cadastral information. The system has been used in several cities of Zhejiang Province and got a favorable response. This verifies the feasibility and effectiveness of the model to some extent.
Institutional Transformation 2.5 Building Module Help Manual.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Villa, Daniel

The Institutional Transformation (IX) building module is a software tool developed at Sandia National Laboratories to evaluate energy conservation measures (ECMs) on hundreds of DOE-2 building energy models simultaneously. In IX, ECMs can be designed through parameterizing DOE-2 building models and doing further processing via visual basic for applications subroutines. IX provides the functionality to handle multiple building models for different years, which enables incrementally changing a site of hundreds of buildings over time. It also enables evaluation of the effects of changing climate, comparisons between data and modeling results, and energy use of centralized utility buildings (CUBs). IX consistsmore » of a Microsoft Excel(r) user interface, Microsoft Access(r) database, and Microsoft Excel(r) CUB build utility whose functionalities are described in detail in this report. In addition to descriptions of the user interfaces, descriptions of every ECM already designed in IX is included. SAND2016-8983 IX 2.5 Help Manual« less
Distribution of soil organic carbon in the conterminous United States

USGS Publications Warehouse

Bliss, Norman B.; Waltman, Sharon; West, Larry T.; Neale, Anne; Mehaffey, Megan; Hartemink, Alfred E.; McSweeney, Kevin M.

2014-01-01

The U.S. Soil Survey Geographic (SSURGO) database provides detailed soil mapping for most of the conterminous United States (CONUS). These data have been used to formulate estimates of soil carbon stocks, and have been useful for environmental models, including plant productivity models, hydrologic models, and ecological models for studies of greenhouse gas exchange. The data were compiled by the U.S. Department of Agriculture Natural Resources Conservation Service (NRCS) from 1:24,000-scale or 1:12,000-scale maps. It was found that the total soil organic carbon stock in CONUS to 1 m depth is 57 Pg C and for the total profile is 73 Pg C, as estimated from SSURGO with data gaps filled from the 1:250,000-scale Digital General Soil Map. We explore the non-linear distribution of soil carbon on the landscape and with depth in the soil, and the implications for sampling strategies that result from the observed soil carbon variability.

Reduction of collisional-radiative models for transient, atomic plasmas

NASA Astrophysics Data System (ADS)

Abrantes, Richard June; Karagozian, Ann; Bilyeu, David; Le, Hai

2017-10-01

Interactions between plasmas and any radiation field, whether by lasers or plasma emissions, introduce many computational challenges. One of these computational challenges involves resolving the atomic physics, which can influence other physical phenomena in the radiated system. In this work, a collisional-radiative (CR) model with reduction capabilities is developed to capture the atomic physics at a reduced computational cost. Although the model is made with any element in mind, the model is currently supplemented by LANL's argon database, which includes the relevant collisional and radiative processes for all of the ionic stages. Using the detailed data set as the true solution, reduction mechanisms in the form of Boltzmann grouping, uniform grouping, and quasi-steady-state (QSS), are implemented to compare against the true solution. Effects on the transient plasma stemming from the grouping methods are compared. Distribution A: Approved for public release; unlimited distribution, PA (Public Affairs) Clearance Number 17449. This work was supported by the Air Force Office of Scientific Research (AFOSR), Grant Number 17RQCOR463 (Dr. Jason Marshall).
Advanced Model for Extreme Lift and Improved Aeroacoustics (AMELIA)

NASA Technical Reports Server (NTRS)

Lichtwardt, Jonathan; Paciano, Eric; Jameson, Tina; Fong, Robert; Marshall, David

2012-01-01

With the very recent advent of NASA's Environmentally Responsible Aviation Project (ERA), which is dedicated to designing aircraft that will reduce the impact of aviation on the environment, there is a need for research and development of methodologies to minimize fuel burn, emissions, and reduce community noise produced by regional airliners. ERA tackles airframe technology, propulsion technology, and vehicle systems integration to meet performance objectives in the time frame for the aircraft to be at a Technology Readiness Level (TRL) of 4-6 by the year of 2020 (deemed N+2). The proceeding project that investigated similar goals to ERA was NASA's Subsonic Fixed Wing (SFW). SFW focused on conducting research to improve prediction methods and technologies that will produce lower noise, lower emissions, and higher performing subsonic aircraft for the Next Generation Air Transportation System. The work provided in this investigation was a NASA Research Announcement (NRA) contract #NNL07AA55C funded by Subsonic Fixed Wing. The project started in 2007 with a specific goal of conducting a large-scale wind tunnel test along with the development of new and improved predictive codes for the advanced powered-lift concepts. Many of the predictive codes were incorporated to refine the wind tunnel model outer mold line design. The large scale wind tunnel test goal was to investigate powered lift technologies and provide an experimental database to validate current and future modeling techniques. Powered-lift concepts investigated were Circulation Control (CC) wing in conjunction with over-the-wing mounted engines to entrain the exhaust to further increase the lift generated by CC technologies alone. The NRA was a five-year effort; during the first year the objective was to select and refine CESTOL concepts and then to complete a preliminary design of a large-scale wind tunnel model for the large scale test. During the second, third, and fourth years the large-scale wind tunnel model design would be completed, manufactured, and calibrated. During the fifth year the large scale wind tunnel test was conducted. This technical memo will describe all phases of the Advanced Model for Extreme Lift and Improved Aeroacoustics (AMELIA) project and provide a brief summary of the background and modeling efforts involved in the NRA. The conceptual designs considered for this project and the decision process for the selected configuration adapted for a wind tunnel model will be briefly discussed. The internal configuration of AMELIA, and the internal measurements chosen in order to satisfy the requirements of obtaining a database of experimental data to be used for future computational model validations. The external experimental techniques that were employed during the test, along with the large-scale wind tunnel test facility are covered in great detail. Experimental measurements in the database include forces and moments, and surface pressure distributions, local skin friction measurements, boundary and shear layer velocity profiles, far-field acoustic data and noise signatures from turbofan propulsion simulators. Results and discussion of the circulation control performance, over-the-wing mounted engines, and the combined performance are also discussed in great detail.
The new MOPREDAS database and the monthly precipitation trends in Spain (December 1945- November 2005)

NASA Astrophysics Data System (ADS)

Gonzalez-Hidalgo, Jose Carlos; Brunetti, Michele; Martin, De Luis

2010-05-01

Precipitation is one of the most important climate elements directly affecting human society, economic activities and natural systems; at the same time it is the most variable climate element, and its changes can be detected only if a spatially dense network of observations is used. Due to this, the last AR4 report renewed interest in the study of precipitation, and suggests focusing on detailed sub-regional studies, with a preference for those areas where water is a scarce resource with heavy demands placed on it. We have developed the new MOPREDAS database (MOnthly PREcipitation DAtabase of Spain) by exploiting the total amount of data available at Spanish Meteorological Agency (AEMET, formerly INM). These provide a total of 2670 complete and homogeneous series for the period 1946-2005 after exhaustive quality control and reconstruction processes, and at present is the most complete and extensive monthly precipitation dataset uptodated in Spain, including dense information up to 1500 m o.l.s.. MOPREDAS has been created with the aim of analyzing the behaviour of precipitation in the conterminous provinces of Spain, and to validate the downscaling of climate models on a detailed spatial level. To this end, the station data were also interpolated on a regular grid, at 1/10 of degree of resolution, over the whole Spain. Trend analysis (Mann-Kendall text, p <0,10) confirms great spatial and temporal variability in the behaviour of precipitation across Spain between 1946-2005. Except March, June and October, no generalized significant pattern have been found, but subregional areas with homogeneous trend were detected. MOPREDAS shows a global decrease of precipitation in March that affects 68.9% of Spain and 31.8% in June, while in October the area affected by positive trends is 33.7% of land (p<0.10). We detected numerous sub-regional coherent patterns well delineated by topographic factors, and passing unnoticed until now due to inadequate data density. These results suggest that both global and local factors affect the spatial distribution of trends in the Iberian Peninsula, being mountain chains the most significant geographical factor in determining the spatial distribution of monthly trends on a detailed, sub-regional spatial scale.
A CFD Database for Airfoils and Wings at Post-Stall Angles of Attack

NASA Technical Reports Server (NTRS)

Petrilli, Justin; Paul, Ryan; Gopalarathnam, Ashok; Frink, Neal T.

2013-01-01

This paper presents selected results from an ongoing effort to develop an aerodynamic database from Reynolds-Averaged Navier-Stokes (RANS) computational analysis of airfoils and wings at stall and post-stall angles of attack. The data obtained from this effort will be used for validation and refinement of a low-order post-stall prediction method developed at NCSU, and to fill existing gaps in high angle of attack data in the literature. Such data could have potential applications in post-stall flight dynamics, helicopter aerodynamics and wind turbine aerodynamics. An overview of the NASA TetrUSS CFD package used for the RANS computational approach is presented. Detailed results for three airfoils are presented to compare their stall and post-stall behavior. The results for finite wings at stall and post-stall conditions focus on the effects of taper-ratio and sweep angle, with particular attention to whether the sectional flows can be approximated using two-dimensional flow over a stalled airfoil. While this approximation seems reasonable for unswept wings even at post-stall conditions, significant spanwise flow on stalled swept wings preclude the use of two-dimensional data to model sectional flows on swept wings. Thus, further effort is needed in low-order aerodynamic modeling of swept wings at stalled conditions.
Field Validation of Food Service Listings: A Comparison of Commercial and Online Geographic Information System Databases

PubMed Central

Seliske, Laura; Pickett, William; Bates, Rebecca; Janssen, Ian

2012-01-01

Many studies examining the food retail environment rely on geographic information system (GIS) databases for location information. The purpose of this study was to validate information provided by two GIS databases, comparing the positional accuracy of food service places within a 1 km circular buffer surrounding 34 schools in Ontario, Canada. A commercial database (InfoCanada) and an online database (Yellow Pages) provided the addresses of food service places. Actual locations were measured using a global positioning system (GPS) device. The InfoCanada and Yellow Pages GIS databases provided the locations for 973 and 675 food service places, respectively. Overall, 749 (77.1%) and 595 (88.2%) of these were located in the field. The online database had a higher proportion of food service places found in the field. The GIS locations of 25% of the food service places were located within approximately 15 m of their actual location, 50% were within 25 m, and 75% were within 50 m. This validation study provided a detailed assessment of errors in the measurement of the location of food service places in the two databases. The location information was more accurate for the online database, however, when matching criteria were more conservative, there were no observed differences in error between the databases. PMID:23066385
Field validation of food service listings: a comparison of commercial and online geographic information system databases.

PubMed

Seliske, Laura; Pickett, William; Bates, Rebecca; Janssen, Ian

2012-08-01

Many studies examining the food retail environment rely on geographic information system (GIS) databases for location information. The purpose of this study was to validate information provided by two GIS databases, comparing the positional accuracy of food service places within a 1 km circular buffer surrounding 34 schools in Ontario, Canada. A commercial database (InfoCanada) and an online database (Yellow Pages) provided the addresses of food service places. Actual locations were measured using a global positioning system (GPS) device. The InfoCanada and Yellow Pages GIS databases provided the locations for 973 and 675 food service places, respectively. Overall, 749 (77.1%) and 595 (88.2%) of these were located in the field. The online database had a higher proportion of food service places found in the field. The GIS locations of 25% of the food service places were located within approximately 15 m of their actual location, 50% were within 25 m, and 75% were within 50 m. This validation study provided a detailed assessment of errors in the measurement of the location of food service places in the two databases. The location information was more accurate for the online database, however, when matching criteria were more conservative, there were no observed differences in error between the databases.
MIPS: a database for genomes and protein sequences

PubMed Central

Mewes, H. W.; Frishman, D.; Güldener, U.; Mannhaupt, G.; Mayer, K.; Mokrejs, M.; Morgenstern, B.; Münsterkötter, M.; Rudd, S.; Weil, B.

2002-01-01

The Munich Information Center for Protein Sequences (MIPS-GSF, Neuherberg, Germany) continues to provide genome-related information in a systematic way. MIPS supports both national and European sequencing and functional analysis projects, develops and maintains automatically generated and manually annotated genome-specific databases, develops systematic classification schemes for the functional annotation of protein sequences, and provides tools for the comprehensive analysis of protein sequences. This report updates the information on the yeast genome (CYGD), the Neurospora crassa genome (MNCDB), the databases for the comprehensive set of genomes (PEDANT genomes), the database of annotated human EST clusters (HIB), the database of complete cDNAs from the DHGP (German Human Genome Project), as well as the project specific databases for the GABI (Genome Analysis in Plants) and HNB (Helmholtz–Netzwerk Bioinformatik) networks. The Arabidospsis thaliana database (MATDB), the database of mitochondrial proteins (MITOP) and our contribution to the PIR International Protein Sequence Database have been described elsewhere [Schoof et al. (2002) Nucleic Acids Res., 30, 91–93; Scharfe et al. (2000) Nucleic Acids Res., 28, 155–158; Barker et al. (2001) Nucleic Acids Res., 29, 29–32]. All databases described, the protein analysis tools provided and the detailed descriptions of our projects can be accessed through the MIPS World Wide Web server (http://mips.gsf.de). PMID:11752246
MIPS: a database for genomes and protein sequences.

PubMed

Mewes, H W; Frishman, D; Güldener, U; Mannhaupt, G; Mayer, K; Mokrejs, M; Morgenstern, B; Münsterkötter, M; Rudd, S; Weil, B

2002-01-01

The Munich Information Center for Protein Sequences (MIPS-GSF, Neuherberg, Germany) continues to provide genome-related information in a systematic way. MIPS supports both national and European sequencing and functional analysis projects, develops and maintains automatically generated and manually annotated genome-specific databases, develops systematic classification schemes for the functional annotation of protein sequences, and provides tools for the comprehensive analysis of protein sequences. This report updates the information on the yeast genome (CYGD), the Neurospora crassa genome (MNCDB), the databases for the comprehensive set of genomes (PEDANT genomes), the database of annotated human EST clusters (HIB), the database of complete cDNAs from the DHGP (German Human Genome Project), as well as the project specific databases for the GABI (Genome Analysis in Plants) and HNB (Helmholtz-Netzwerk Bioinformatik) networks. The Arabidospsis thaliana database (MATDB), the database of mitochondrial proteins (MITOP) and our contribution to the PIR International Protein Sequence Database have been described elsewhere [Schoof et al. (2002) Nucleic Acids Res., 30, 91-93; Scharfe et al. (2000) Nucleic Acids Res., 28, 155-158; Barker et al. (2001) Nucleic Acids Res., 29, 29-32]. All databases described, the protein analysis tools provided and the detailed descriptions of our projects can be accessed through the MIPS World Wide Web server (http://mips.gsf.de).
From experimental imaging techniques to virtual embryology.

PubMed

Weninger, Wolfgang J; Tassy, Olivier; Darras, Sébastien; Geyer, Stefan H; Thieffry, Denis

2004-01-01

Modern embryology increasingly relies on descriptive and functional three dimensional (3D) and four dimensional (4D) analysis of physically, optically, or virtually sectioned specimens. To cope with the technical requirements, new methods for high detailed in vivo imaging, as well as the generation of high resolution digital volume data sets for the accurate visualisation of transgene activity and gene product presence, in the context of embryo morphology, were recently developed and are under construction. These methods profoundly change the scientific applicability, appearance and style of modern embryo representations. In this paper, we present an overview of the emerging techniques to create, visualise and administrate embryo representations (databases, digital data sets, 3-4D embryo reconstructions, models, etc.), and discuss the implications of these new methods on the work of modern embryologists, including, research, teaching, the selection of specific model organisms, and potential collaborators.
An Experimental and Numerical Study of a Supersonic Burner for CFD Model Development

NASA Technical Reports Server (NTRS)

Magnotti, G.; Cutler, A. D.

2008-01-01

A laboratory scale supersonic burner has been developed for validation of computational fluid dynamics models. Detailed numerical simulations were performed for the flow inside the combustor, and coupled with finite element thermal analysis to obtain more accurate outflow conditions. A database of nozzle exit profiles for a wide range of conditions of interest was generated to be used as boundary conditions for simulation of the external jet, or for validation of non-intrusive measurement techniques. A set of experiments was performed to validate the numerical results. In particular, temperature measurements obtained by using an infrared camera show that the computed heat transfer was larger than the measured value. Relaminarization in the convergent part of the nozzle was found to be responsible for this discrepancy, and further numerical simulations sustained this conclusion.
Transition Documentation on a Three-Element High-Lift Configuration at High Reynolds Numbers--Database. [conducted in the Langley Low Turbulence Pressure Tunnel

NASA Technical Reports Server (NTRS)

Bertelrud, Arild; Johnson, Sherylene; Anders, J. B. (Technical Monitor)

2002-01-01

A 2-D (two dimensional) high-lift system experiment was conducted in August of 1996 in the Low Turbulence Pressure Tunnel at NASA Langley Research Center, Hampton, VA. The purpose of the experiment was to obtain transition measurements on a three element high-lift system for CFD (computational fluid dynamics) code validation studies. A transition database has been created using the data from this experiment. The present report details how the hot-film data and the related pressure data are organized in the database. Data processing codes to access the data in an efficient and reliable manner are described and limited examples are given on how to access the database and store acquired information.
Anatomy and evolution of database search engines-a central component of mass spectrometry based proteomic workflows.

PubMed

Verheggen, Kenneth; Raeder, Helge; Berven, Frode S; Martens, Lennart; Barsnes, Harald; Vaudel, Marc

2017-09-13

Sequence database search engines are bioinformatics algorithms that identify peptides from tandem mass spectra using a reference protein sequence database. Two decades of development, notably driven by advances in mass spectrometry, have provided scientists with more than 30 published search engines, each with its own properties. In this review, we present the common paradigm behind the different implementations, and its limitations for modern mass spectrometry datasets. We also detail how the search engines attempt to alleviate these limitations, and provide an overview of the different software frameworks available to the researcher. Finally, we highlight alternative approaches for the identification of proteomic mass spectrometry datasets, either as a replacement for, or as a complement to, sequence database search engines. © 2017 Wiley Periodicals, Inc.
Guideline.gov: A Database of Clinical Specialty Guidelines.

PubMed

El-Khayat, Yamila M; Forbes, Carrie S; Coghill, Jeffrey G

2017-01-01

The National Guidelines Clearinghouse (NGC), also known as Guideline.gov, is a database of resources to assist health care providers with a central depository of guidelines for clinical specialty areas in medicine. The database is provided free of charge and is sponsored by the U.S. Department of Health and Human Services and the Agency for Healthcare Research and Quality. The guidelines for treatment are updated regularly, with new guidelines replacing older guidelines every five years. There are hundreds of current guidelines with more added each week. The purpose and goal of NGC is to provide physicians, nurses, and other health care providers, insurance companies, and others in the field of health care with a unified database of the most current, detailed, relevant, and objective clinical practice guidelines.
The liver tissue bank and clinical database in China.

PubMed

Yang, Yuan; Liu, Yi-Min; Wei, Ming-Yue; Wu, Yi-Fei; Gao, Jun-Hui; Liu, Lei; Zhou, Wei-Ping; Wang, Hong-Yang; Wu, Meng-Chao

2010-12-01

To develop a standardized and well-rounded material available for hepatology research, the National Liver Tissue Bank (NLTB) Project began in 2008 in China to make well-characterized and optimally preserved liver tumor tissue and clinical database. From Dec 2008 to Jun 2010, over 3000 individuals have been enrolled as liver tumor donors to the NLTB, including 2317 cases of newly diagnosed hepatocellular carcinoma (HCC) and about 1000 cases of diagnosed benign or malignant liver tumors. The clinical database and sample store can be managed easily and correctly with the data management platform used. We believe that the high-quality samples with detailed information database will become the cornerstone of hepatology research especially in studies exploring the diagnosis and new treatments for HCC and other liver diseases.
The effective use of newspaper information in corporations (2) Centered around corporate and managemant information

NASA Astrophysics Data System (ADS)

Kamio, Tatsuo

A newspaper article is a fragmentary record of fact. For information activities in corporations it is fundamental to gather newspaper articles related to the object thema as many as possible, integrate them, analyze them, and then, create new intelligence based on them. Here in databases become effective measures. It seems essential to construct searching strategy with high recall of necessary information and understand the databases in detail when we use newspaper article databases. The cases that newspaper databases are useful for business are represented by (1) research and analysis for problem solving, (2) gathering of knowledge, and confirmation of the facts, and (3) constant observation of facts without missing any change in there. Particularly for case (1) various methods are tried for analyzing the tendency.
23 CFR 450.312 - Metropolitan planning area boundaries.

Code of Federal Regulations, 2014 CFR

2014-04-01

... area. (d) MPA boundaries may be established to coincide with the geography of regional economic... descriptions shall be submitted either as a geo-spatial database or described in sufficient detail to enable...
23 CFR 450.312 - Metropolitan planning area boundaries.

Code of Federal Regulations, 2012 CFR

2012-04-01

... area. (d) MPA boundaries may be established to coincide with the geography of regional economic... descriptions shall be submitted either as a geo-spatial database or described in sufficient detail to enable...
23 CFR 450.312 - Metropolitan planning area boundaries.

Code of Federal Regulations, 2013 CFR

2013-04-01

... area. (d) MPA boundaries may be established to coincide with the geography of regional economic... descriptions shall be submitted either as a geo-spatial database or described in sufficient detail to enable...
Construction of a database for published phase II/III drug intervention clinical trials for the period 2009-2014 comprising 2,326 records, 90 disease categories, and 939 drug entities.

PubMed

Jeong, Sohyun; Han, Nayoung; Choi, Boyoon; Sohn, Minji; Song, Yun-Kyoung; Chung, Myeon-Woo; Na, Han-Sung; Ji, Eunhee; Kim, Hyunah; Rhew, Ki Yon; Kim, Therasa; Kim, In-Wha; Oh, Jung Mi

2016-06-01

To construct a database of published clinical drug trials suitable for use 1) as a research tool in accessing clinical trial information and 2) in evidence-based decision-making by regulatory professionals, clinical research investigators, and medical practitioners. Comprehensive information obtained from a search of design elements and results of clinical trials in peer reviewed journals using PubMed (http://www.ncbi.nlm.ih.gov/pubmed). The methodology to develop a structured database was devised by a panel composed of experts in medical, pharmaceutical, information technology, and members of Ministry of Food and Drug Safety (MFDS) using a step by step approach. A double-sided system consisting of user mode and manager mode served as the framework for the database; elements of interest from each trial were entered via secure manager mode enabling the input information to be accessed in a user-friendly manner (user mode). Information regarding methodology used and results of drug treatment were extracted as detail elements of each data set and then inputted into the web-based database system. Comprehensive information comprising 2,326 clinical trial records, 90 disease states, and 939 drugs entities and concerning study objectives, background, methods used, results, and conclusion could be extracted from published information on phase II/III drug intervention clinical trials appearing in SCI journals within the last 10 years. The extracted data was successfully assembled into a clinical drug trial database with easy access suitable for use as a research tool. The clinically most important therapeutic categories, i.e., cancer, cardiovascular, respiratory, neurological, metabolic, urogenital, gastrointestinal, psychological, and infectious diseases were covered by the database. Names of test and control drugs, details on primary and secondary outcomes and indexed keywords could also be retrieved and built into the database. The construction used in the database enables the user to sort and download targeted information as a Microsoft Excel spreadsheet. Because of the comprehensive and standardized nature of the clinical drug trial database and its ease of access it should serve as valuable information repository and research tool for accessing clinical trial information and making evidence-based decisions by regulatory professionals, clinical research investigators, and medical practitioners.
Graduation and Persistence Rates: University of Hawaii Community Colleges, Fall 1987-Fall 1995 Cohorts. A Summary of Selected Data from the NCHEMS/University of Hawaii System Longitudinal Database Project. Special Report.

ERIC Educational Resources Information Center

Hawaii Univ., Honolulu. Institutional Research Office.

This report details graduation and persistence rates for degree-seeking students at the seven University of Hawaii Community Colleges (UHCC) from Fall 1987-Fall 1995. The data are from the National Center for Higher Education Management Systems/University of Hawaii System Longitudinal Database Project. The report focuses on full-time and part-time…

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